https://launchpad.net/ubuntu/+source/openstructure/2.5.0-1ubuntu5/+build/28432901 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux bos02-arm64-031 5.4.0-177-generic #197-Ubuntu SMP Thu Mar 28 22:51:24 UTC 2024 aarch64 Buildd toolchain package versions: launchpad-buildd_237~660~ubuntu20.04.1 python3-lpbuildd_237~660~ubuntu20.04.1 sbuild_0.79.0-1ubuntu1 git-build-recipe_0.3.6 git_1:2.25.1-1ubuntu3.11 dpkg-dev_1.19.7ubuntu3.2 python3-debian_0.1.36ubuntu1.1. Syncing the system clock with the buildd NTP service... 14 May 01:09:24 ntpdate[1870]: adjust time server 10.211.37.1 offset 0.015142 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=oracular --arch=armhf PACKAGEBUILD-28432901 --image-type chroot /home/buildd/filecache-default/59612f0fc5bae33f6226b6e60c2e882b82c04bd0 Creating target for build PACKAGEBUILD-28432901 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=oracular --arch=armhf PACKAGEBUILD-28432901 Starting target for build PACKAGEBUILD-28432901 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=oracular --arch=armhf PACKAGEBUILD-28432901 'deb http://ftpmaster.internal/ubuntu oracular main universe' Overriding sources.list in build-PACKAGEBUILD-28432901 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=oracular --arch=armhf PACKAGEBUILD-28432901 Updating target for build PACKAGEBUILD-28432901 Get:1 http://ftpmaster.internal/ubuntu oracular InRelease [73.9 kB] Get:2 http://ftpmaster.internal/ubuntu oracular/main armhf Packages [1300 kB] Get:3 http://ftpmaster.internal/ubuntu oracular/main Translation-en [512 kB] Get:4 http://ftpmaster.internal/ubuntu oracular/universe armhf Packages [14.3 MB] Get:5 http://ftpmaster.internal/ubuntu oracular/universe Translation-en [6027 kB] Fetched 22.2 MB in 9s (2557 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: libnsl-dev libtirpc-dev libunistring2 perl-modules-5.36 Use 'sudo apt autoremove' to remove them. The following packages will be REMOVED: libapt-pkg6.0* libdb5.3* libext2fs2* libgdbm-compat4* libgdbm6* libgnutls30* libhogweed6* libnettle8* libnpth0* libperl5.36* libpng16-16* libreadline8* libssl3* libtirpc3* usrmerge* The following NEW packages will be installed: cpp-13-arm-linux-gnueabihf cpp-arm-linux-gnueabihf g++-13-arm-linux-gnueabihf g++-arm-linux-gnueabihf gcc-13-arm-linux-gnueabihf gcc-14-base gcc-arm-linux-gnueabihf libapt-pkg6.0t64 libdb5.3t64 libext2fs2t64 libgdbm-compat4t64 libgdbm6t64 libgnutls30t64 libhogweed6t64 libnettle8t64 libnpth0t64 libperl5.38t64 libpng16-16t64 libreadline8t64 libssl3t64 libtirpc3t64 libunistring5 perl-modules-5.38 The following packages will be upgraded: advancecomp apt apt-utils base-files base-passwd bash bash-completion binutils binutils-arm-linux-gnueabihf binutils-common bsdextrautils bsdutils bzip2 ca-certificates coreutils cpp cpp-13 dash debconf debconf-i18n debianutils diffutils dpkg dpkg-dev e2fsprogs fakeroot findutils g++ g++-13 gcc gcc-13 gcc-13-base gpg gpg-agent gpgconf gpgv grep gzip hostname init init-system-helpers krb5-locales libacl1 libapparmor1 libargon2-1 libasan8 libassuan0 libatomic1 libattr1 libaudit-common libaudit1 libbinutils libblkid1 libbz2-1.0 libc-bin libc-dev-bin libc6 libc6-dev libcap-ng0 libcap2 libcc1-0 libcom-err2 libcrypt-dev libcrypt1 libcryptsetup12 libctf-nobfd0 libctf0 libdebconfclient0 libdevmapper1.02.1 libdpkg-perl libfakeroot libfdisk1 libffi8 libgcc-13-dev libgcc-s1 libgcrypt20 libgmp10 libgomp1 libgpg-error-l10n libgpg-error0 libgpm2 libgssapi-krb5-2 libidn2-0 libip4tc2 libisl23 libjansson4 libjson-c5 libk5crypto3 libkeyutils1 libkmod2 libkrb5-3 libkrb5support0 liblocale-gettext-perl liblockfile-bin liblockfile1 liblz4-1 liblzma5 libmd0 libmount1 libmpc3 libmpfr6 libncursesw6 libnsl-dev libnsl2 libnss-nis libnss-nisplus libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpcre2-8-0 libproc2-0 libseccomp2 libselinux1 libsemanage-common libsemanage2 libsepol2 libsframe1 libsmartcols1 libsqlite3-0 libss2 libstdc++-13-dev libstdc++6 libsystemd-shared libsystemd0 libtasn1-6 libtext-charwidth-perl libtext-iconv-perl libtinfo6 libtirpc-common libtirpc-dev libubsan1 libudev1 libuuid1 libxxhash0 libzstd1 linux-libc-dev lockfile-progs login logsave lto-disabled-list make mawk mount ncurses-base ncurses-bin openssl optipng passwd patch perl perl-base pinentry-curses procps psmisc readline-common rpcsvc-proto sed sensible-utils systemd systemd-dev systemd-sysv sysvinit-utils tar tzdata ubuntu-keyring util-linux uuid-runtime xz-utils zlib1g 171 upgraded, 23 newly installed, 15 to remove and 0 not upgraded. Need to get 98.9 MB of archives. After this operation, 24.6 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu oracular/main armhf libtirpc-common all 1.3.4+ds-1.1build1 [8094 B] Get:2 http://ftpmaster.internal/ubuntu oracular/main armhf libtirpc-dev armhf 1.3.4+ds-1.1build1 [184 kB] Get:3 http://ftpmaster.internal/ubuntu oracular/main armhf libnsl-dev armhf 1.3.0-3build3 [66.2 kB] Get:4 http://ftpmaster.internal/ubuntu oracular/main armhf libnsl2 armhf 1.3.0-3build3 [36.5 kB] Get:5 http://ftpmaster.internal/ubuntu oracular/universe armhf libnss-nisplus armhf 1.3-5build1 [20.1 kB] Get:6 http://ftpmaster.internal/ubuntu oracular/main armhf libgssapi-krb5-2 armhf 1.20.1-6ubuntu2 [119 kB] Get:7 http://ftpmaster.internal/ubuntu oracular/main armhf libkrb5-3 armhf 1.20.1-6ubuntu2 [321 kB] Get:8 http://ftpmaster.internal/ubuntu oracular/main armhf libk5crypto3 armhf 1.20.1-6ubuntu2 [78.6 kB] Get:9 http://ftpmaster.internal/ubuntu oracular/main armhf libkrb5support0 armhf 1.20.1-6ubuntu2 [31.4 kB] Get:10 http://ftpmaster.internal/ubuntu oracular/main armhf openssl armhf 3.0.13-0ubuntu3 [974 kB] Get:11 http://ftpmaster.internal/ubuntu oracular/main armhf libacl1 armhf 2.3.2-1build1 [15.1 kB] Get:12 http://ftpmaster.internal/ubuntu oracular/main armhf libapparmor1 armhf 4.0.0-beta3-0ubuntu3 [45.1 kB] Get:13 http://ftpmaster.internal/ubuntu oracular/main armhf libaudit-common all 1:3.1.2-2.1build1 [5736 B] Get:14 http://ftpmaster.internal/ubuntu oracular/main armhf libcap-ng0 armhf 0.8.4-2build2 [13.6 kB] Get:15 http://ftpmaster.internal/ubuntu oracular/main armhf libaudit1 armhf 1:3.1.2-2.1build1 [44.4 kB] Get:16 http://ftpmaster.internal/ubuntu oracular/main armhf libblkid1 armhf 2.39.3-9ubuntu6 [160 kB] Get:17 http://ftpmaster.internal/ubuntu oracular/main armhf libcap2 armhf 1:2.66-5ubuntu2 [25.8 kB] Get:18 http://ftpmaster.internal/ubuntu oracular/main armhf libcrypt-dev armhf 1:4.4.36-4build1 [120 kB] Get:19 http://ftpmaster.internal/ubuntu oracular/main armhf libcrypt1 armhf 1:4.4.36-4build1 [92.6 kB] Get:20 http://ftpmaster.internal/ubuntu oracular/main armhf libgpg-error-l10n all 1.47-3build2 [8064 B] Get:21 http://ftpmaster.internal/ubuntu oracular/main armhf libgpg-error0 armhf 1.47-3build2 [61.6 kB] Get:22 http://ftpmaster.internal/ubuntu oracular/main armhf libgcrypt20 armhf 1.10.3-2build1 [454 kB] Get:23 http://ftpmaster.internal/ubuntu oracular/main armhf liblzma5 armhf 5.6.1+really5.4.5-1 [111 kB] Get:24 http://ftpmaster.internal/ubuntu oracular/main armhf libzstd1 armhf 1.5.5+dfsg2-2build1 [265 kB] Get:25 http://ftpmaster.internal/ubuntu oracular/main armhf libkmod2 armhf 31+20240202-2ubuntu7 [45.1 kB] Get:26 http://ftpmaster.internal/ubuntu oracular/main armhf liblz4-1 armhf 1.9.4-1build1 [58.0 kB] Get:27 http://ftpmaster.internal/ubuntu oracular/main armhf libpcre2-8-0 armhf 10.42-4ubuntu2 [198 kB] Get:28 http://ftpmaster.internal/ubuntu oracular/main armhf libselinux1 armhf 3.5-2ubuntu2 [70.9 kB] Get:29 http://ftpmaster.internal/ubuntu oracular/main armhf libmount1 armhf 2.39.3-9ubuntu6 [171 kB] Get:30 http://ftpmaster.internal/ubuntu oracular/main armhf perl-modules-5.38 all 5.38.2-3.2build2 [3110 kB] Get:31 http://ftpmaster.internal/ubuntu oracular/main armhf libdb5.3t64 armhf 5.3.28+dfsg2-7 [662 kB] Get:32 http://ftpmaster.internal/ubuntu oracular/main armhf libgdbm6t64 armhf 1.23-5.1build1 [30.3 kB] Get:33 http://ftpmaster.internal/ubuntu oracular/main armhf libgdbm-compat4t64 armhf 1.23-5.1build1 [6216 B] Get:34 http://ftpmaster.internal/ubuntu oracular/main armhf libperl5.38t64 armhf 5.38.2-3.2build2 [4109 kB] Get:35 http://ftpmaster.internal/ubuntu oracular/main armhf perl armhf 5.38.2-3.2build2 [231 kB] Get:36 http://ftpmaster.internal/ubuntu oracular/main armhf perl-base armhf 5.38.2-3.2build2 [1671 kB] Get:37 http://ftpmaster.internal/ubuntu oracular/main armhf liblocale-gettext-perl armhf 1.07-6ubuntu5 [15.1 kB] Get:38 http://ftpmaster.internal/ubuntu oracular/main armhf libtext-iconv-perl armhf 1.7-8build3 [12.7 kB] Get:39 http://ftpmaster.internal/ubuntu oracular/main armhf libtext-charwidth-perl armhf 0.04-11build3 [8992 B] Get:40 http://ftpmaster.internal/ubuntu oracular/universe armhf libnss-nis armhf 3.1-0ubuntu7 [23.1 kB] Get:41 http://ftpmaster.internal/ubuntu oracular/main armhf libc-dev-bin armhf 2.39-0ubuntu8 [19.1 kB] Get:42 http://ftpmaster.internal/ubuntu oracular/main armhf rpcsvc-proto armhf 1.4.2-0ubuntu7 [62.2 kB] Get:43 http://ftpmaster.internal/ubuntu oracular/main armhf libc6-dev armhf 2.39-0ubuntu8 [1352 kB] Get:44 http://ftpmaster.internal/ubuntu oracular/main armhf libc6 armhf 2.39-0ubuntu8 [2828 kB] Get:45 http://ftpmaster.internal/ubuntu oracular/main armhf libc-bin armhf 2.39-0ubuntu8 [530 kB] Get:46 http://ftpmaster.internal/ubuntu oracular/main armhf libsystemd-shared armhf 255.4-1ubuntu8 [2010 kB] Get:47 http://ftpmaster.internal/ubuntu oracular/main armhf libcryptsetup12 armhf 2:2.7.0-1ubuntu4 [238 kB] Get:48 http://ftpmaster.internal/ubuntu oracular/main armhf libssl3t64 armhf 3.0.13-0ubuntu3 [1558 kB] Get:49 http://ftpmaster.internal/ubuntu oracular/main armhf systemd-dev all 255.4-1ubuntu8 [104 kB] Get:50 http://ftpmaster.internal/ubuntu oracular/main armhf systemd-sysv armhf 255.4-1ubuntu8 [11.9 kB] Get:51 http://ftpmaster.internal/ubuntu oracular/main armhf systemd armhf 255.4-1ubuntu8 [3501 kB] Get:52 http://ftpmaster.internal/ubuntu oracular/main armhf libsystemd0 armhf 255.4-1ubuntu8 [410 kB] Get:53 http://ftpmaster.internal/ubuntu oracular/main armhf libpam-modules-bin armhf 1.5.3-5ubuntu5 [47.0 kB] Get:54 http://ftpmaster.internal/ubuntu oracular/main armhf libpam-modules armhf 1.5.3-5ubuntu5 [260 kB] Get:55 http://ftpmaster.internal/ubuntu oracular/main armhf libapt-pkg6.0t64 armhf 2.7.14build2 [986 kB] Get:56 http://ftpmaster.internal/ubuntu oracular/main armhf libnettle8t64 armhf 3.9.1-2.2build1 [187 kB] Get:57 http://ftpmaster.internal/ubuntu oracular/main armhf libhogweed6t64 armhf 3.9.1-2.2build1 [187 kB] Get:58 http://ftpmaster.internal/ubuntu oracular/main armhf libp11-kit0 armhf 0.25.3-4ubuntu2 [258 kB] Get:59 http://ftpmaster.internal/ubuntu oracular/main armhf libunistring5 armhf 1.2-1 [521 kB] Get:60 http://ftpmaster.internal/ubuntu oracular/main armhf libgnutls30t64 armhf 3.8.3-1.1ubuntu3 [947 kB] Get:61 http://ftpmaster.internal/ubuntu oracular/main armhf apt armhf 2.7.14build2 [1368 kB] Get:62 http://ftpmaster.internal/ubuntu oracular/main armhf apt-utils armhf 2.7.14build2 [210 kB] Get:63 http://ftpmaster.internal/ubuntu oracular/main armhf bzip2 armhf 1.0.8-5.1 [33.5 kB] Get:64 http://ftpmaster.internal/ubuntu oracular/main armhf libbz2-1.0 armhf 1.0.8-5.1 [31.1 kB] Get:65 http://ftpmaster.internal/ubuntu oracular/main armhf zlib1g armhf 1:1.3.dfsg-3.1ubuntu2 [49.2 kB] Get:66 http://ftpmaster.internal/ubuntu oracular/main armhf debconf-i18n all 1.5.86ubuntu1 [205 kB] Get:67 http://ftpmaster.internal/ubuntu oracular/main armhf debconf all 1.5.86ubuntu1 [124 kB] Get:68 http://ftpmaster.internal/ubuntu oracular/main armhf libpam0g armhf 1.5.3-5ubuntu5 [62.1 kB] Get:69 http://ftpmaster.internal/ubuntu oracular/main armhf libseccomp2 armhf 2.5.5-1ubuntu3 [49.5 kB] Get:70 http://ftpmaster.internal/ubuntu oracular/main armhf libargon2-1 armhf 0~20190702+dfsg-4build1 [22.6 kB] Get:71 http://ftpmaster.internal/ubuntu oracular/main armhf libudev1 armhf 255.4-1ubuntu8 [167 kB] Get:72 http://ftpmaster.internal/ubuntu oracular/main armhf libdevmapper1.02.1 armhf 2:1.02.185-3ubuntu3 [135 kB] Get:73 http://ftpmaster.internal/ubuntu oracular/main armhf libjson-c5 armhf 0.17-1build1 [31.3 kB] Get:74 http://ftpmaster.internal/ubuntu oracular/main armhf libuuid1 armhf 2.39.3-9ubuntu6 [34.7 kB] Get:75 http://ftpmaster.internal/ubuntu oracular/main armhf libfdisk1 armhf 2.39.3-9ubuntu6 [196 kB] Get:76 http://ftpmaster.internal/ubuntu oracular/main armhf mount armhf 2.39.3-9ubuntu6 [133 kB] Get:77 http://ftpmaster.internal/ubuntu oracular/main armhf libcom-err2 armhf 1.47.0-2.4~exp1ubuntu4 [21.9 kB] Get:78 http://ftpmaster.internal/ubuntu oracular/main armhf libkeyutils1 armhf 1.6.3-3build1 [8236 B] Get:79 http://ftpmaster.internal/ubuntu oracular/main armhf libtirpc3t64 armhf 1.3.4+ds-1.1build1 [73.3 kB] Get:80 http://ftpmaster.internal/ubuntu oracular/main armhf linux-libc-dev armhf 6.8.0-31.31 [1557 kB] Get:81 http://ftpmaster.internal/ubuntu oracular/main armhf gcc-14-base armhf 14-20240412-0ubuntu1 [47.6 kB] Get:82 http://ftpmaster.internal/ubuntu oracular/main armhf libgcc-s1 armhf 14-20240412-0ubuntu1 [41.5 kB] Get:83 http://ftpmaster.internal/ubuntu oracular/main armhf base-files armhf 13.1ubuntu1 [73.6 kB] Get:84 http://ftpmaster.internal/ubuntu oracular/main armhf debianutils armhf 5.17build1 [89.0 kB] Get:85 http://ftpmaster.internal/ubuntu oracular/main armhf bash armhf 5.2.21-2ubuntu4 [668 kB] Get:86 http://ftpmaster.internal/ubuntu oracular/main armhf bsdutils armhf 1:2.39.3-9ubuntu6 [102 kB] Get:87 http://ftpmaster.internal/ubuntu oracular/main armhf coreutils armhf 9.4-3ubuntu6 [1280 kB] Get:88 http://ftpmaster.internal/ubuntu oracular/main armhf libstdc++6 armhf 14-20240412-0ubuntu1 [714 kB] Get:89 http://ftpmaster.internal/ubuntu oracular/main armhf libxxhash0 armhf 0.8.2-2build1 [31.5 kB] Get:90 http://ftpmaster.internal/ubuntu oracular/main armhf libgmp10 armhf 2:6.3.0+dfsg-2ubuntu6 [207 kB] Get:91 http://ftpmaster.internal/ubuntu oracular/main armhf libffi8 armhf 3.4.6-1build1 [21.2 kB] Get:92 http://ftpmaster.internal/ubuntu oracular/main armhf libidn2-0 armhf 2.3.7-2build1 [96.2 kB] Get:93 http://ftpmaster.internal/ubuntu oracular/main armhf libtasn1-6 armhf 4.19.0-3build1 [37.2 kB] Get:94 http://ftpmaster.internal/ubuntu oracular/main armhf libdebconfclient0 armhf 0.271ubuntu3 [10.9 kB] Get:95 http://ftpmaster.internal/ubuntu oracular/main armhf base-passwd armhf 3.6.3build1 [50.9 kB] Get:96 http://ftpmaster.internal/ubuntu oracular/main armhf libassuan0 armhf 2.5.6-1build1 [31.3 kB] Get:97 http://ftpmaster.internal/ubuntu oracular/main armhf libsqlite3-0 armhf 3.45.1-1ubuntu2 [590 kB] Get:98 http://ftpmaster.internal/ubuntu oracular/main armhf gpg armhf 2.4.4-2ubuntu17 [524 kB] Get:99 http://ftpmaster.internal/ubuntu oracular/main armhf gpg-agent armhf 2.4.4-2ubuntu17 [235 kB] Get:100 http://ftpmaster.internal/ubuntu oracular/main armhf gpgconf armhf 2.4.4-2ubuntu17 [115 kB] Get:101 http://ftpmaster.internal/ubuntu oracular/main armhf readline-common all 8.2-4build1 [56.5 kB] Get:102 http://ftpmaster.internal/ubuntu oracular/main armhf libncursesw6 armhf 6.4+20240113-1ubuntu2 [119 kB] Get:103 http://ftpmaster.internal/ubuntu oracular/main armhf libtinfo6 armhf 6.4+20240113-1ubuntu2 [90.8 kB] Get:104 http://ftpmaster.internal/ubuntu oracular/main armhf libreadline8t64 armhf 8.2-4build1 [129 kB] Get:105 http://ftpmaster.internal/ubuntu oracular/main armhf pinentry-curses armhf 1.2.1-3ubuntu5 [36.7 kB] Get:106 http://ftpmaster.internal/ubuntu oracular/main armhf init-system-helpers all 1.66ubuntu1 [39.4 kB] Get:107 http://ftpmaster.internal/ubuntu oracular/main armhf libnpth0t64 armhf 1.6-3.1build1 [6998 B] Get:108 http://ftpmaster.internal/ubuntu oracular/main armhf gpgv armhf 2.4.4-2ubuntu17 [224 kB] Get:109 http://ftpmaster.internal/ubuntu oracular/main armhf ubuntu-keyring all 2023.11.28.1 [11.1 kB] Get:110 http://ftpmaster.internal/ubuntu oracular/main armhf tar armhf 1.35+dfsg-3build1 [236 kB] Get:111 http://ftpmaster.internal/ubuntu oracular/main armhf dpkg armhf 1.22.6ubuntu6 [1230 kB] Get:112 http://ftpmaster.internal/ubuntu oracular/main armhf dash armhf 0.5.12-6ubuntu5 [80.8 kB] Get:113 http://ftpmaster.internal/ubuntu oracular/main armhf diffutils armhf 1:3.10-1build1 [167 kB] Get:114 http://ftpmaster.internal/ubuntu oracular/main armhf findutils armhf 4.9.0-5build1 [293 kB] Get:115 http://ftpmaster.internal/ubuntu oracular/main armhf grep armhf 3.11-4build1 [157 kB] Get:116 http://ftpmaster.internal/ubuntu oracular/main armhf gzip armhf 1.12-1ubuntu3 [95.8 kB] Get:117 http://ftpmaster.internal/ubuntu oracular/main armhf hostname armhf 3.23+nmu2ubuntu2 [10.4 kB] Get:118 http://ftpmaster.internal/ubuntu oracular/main armhf login armhf 1:4.13+dfsg1-4ubuntu3 [200 kB] Get:119 http://ftpmaster.internal/ubuntu oracular/main armhf ncurses-bin armhf 6.4+20240113-1ubuntu2 [178 kB] Get:120 http://ftpmaster.internal/ubuntu oracular/main armhf sed armhf 4.9-2build1 [190 kB] Get:121 http://ftpmaster.internal/ubuntu oracular/main armhf util-linux armhf 2.39.3-9ubuntu6 [1216 kB] Get:122 http://ftpmaster.internal/ubuntu oracular/main armhf ncurses-base all 6.4+20240113-1ubuntu2 [25.5 kB] Get:123 http://ftpmaster.internal/ubuntu oracular/main armhf sysvinit-utils armhf 3.08-6ubuntu3 [33.8 kB] Get:124 http://ftpmaster.internal/ubuntu oracular/main armhf logsave armhf 1.47.0-2.4~exp1ubuntu4 [22.0 kB] Get:125 http://ftpmaster.internal/ubuntu oracular/main armhf libext2fs2t64 armhf 1.47.0-2.4~exp1ubuntu4 [202 kB] Get:126 http://ftpmaster.internal/ubuntu oracular/main armhf e2fsprogs armhf 1.47.0-2.4~exp1ubuntu4 [571 kB] Get:127 http://ftpmaster.internal/ubuntu oracular/main armhf optipng armhf 0.7.8+ds-1build2 [109 kB] Get:128 http://ftpmaster.internal/ubuntu oracular/main armhf libpng16-16t64 armhf 1.6.43-5build1 [166 kB] Get:129 http://ftpmaster.internal/ubuntu oracular/main armhf init armhf 1.66ubuntu1 [6186 B] Get:130 http://ftpmaster.internal/ubuntu oracular/main armhf libsmartcols1 armhf 2.39.3-9ubuntu6 [117 kB] Get:131 http://ftpmaster.internal/ubuntu oracular/main armhf uuid-runtime armhf 2.39.3-9ubuntu6 [41.8 kB] Get:132 http://ftpmaster.internal/ubuntu oracular/main armhf libattr1 armhf 1:2.5.2-1build1 [10.2 kB] Get:133 http://ftpmaster.internal/ubuntu oracular/main armhf libmd0 armhf 1.1.0-2build1 [23.0 kB] Get:134 http://ftpmaster.internal/ubuntu oracular/main armhf libpam-runtime all 1.5.3-5ubuntu5 [40.8 kB] Get:135 http://ftpmaster.internal/ubuntu oracular/main armhf libsemanage-common all 3.5-1build5 [10.1 kB] Get:136 http://ftpmaster.internal/ubuntu oracular/main armhf libsepol2 armhf 3.5-2build1 [263 kB] Get:137 http://ftpmaster.internal/ubuntu oracular/main armhf libsemanage2 armhf 3.5-1build5 [84.5 kB] Get:138 http://ftpmaster.internal/ubuntu oracular/main armhf passwd armhf 1:4.13+dfsg1-4ubuntu3 [817 kB] Get:139 http://ftpmaster.internal/ubuntu oracular/main armhf libproc2-0 armhf 2:4.0.4-4ubuntu3 [49.0 kB] Get:140 http://ftpmaster.internal/ubuntu oracular/main armhf libss2 armhf 1.47.0-2.4~exp1ubuntu4 [14.7 kB] Get:141 http://ftpmaster.internal/ubuntu oracular/main armhf mawk armhf 1.3.4.20240123-1build1 [115 kB] Get:142 http://ftpmaster.internal/ubuntu oracular/main armhf procps armhf 2:4.0.4-4ubuntu3 [700 kB] Get:143 http://ftpmaster.internal/ubuntu oracular/main armhf sensible-utils all 0.0.22 [22.5 kB] Get:144 http://ftpmaster.internal/ubuntu oracular/main armhf ca-certificates all 20240203 [159 kB] Get:145 http://ftpmaster.internal/ubuntu oracular/main armhf krb5-locales all 1.20.1-6ubuntu2 [13.8 kB] Get:146 http://ftpmaster.internal/ubuntu oracular/main armhf tzdata all 2024a-2ubuntu1 [273 kB] Get:147 http://ftpmaster.internal/ubuntu oracular/main armhf bash-completion all 1:2.11-8 [180 kB] Get:148 http://ftpmaster.internal/ubuntu oracular/main armhf bsdextrautils armhf 2.39.3-9ubuntu6 [78.7 kB] Get:149 http://ftpmaster.internal/ubuntu oracular/main armhf libgpm2 armhf 1.20.7-11 [13.6 kB] Get:150 http://ftpmaster.internal/ubuntu oracular/main armhf libip4tc2 armhf 1.8.10-3ubuntu2 [21.3 kB] Get:151 http://ftpmaster.internal/ubuntu oracular/main armhf libjansson4 armhf 2.14-2build2 [28.2 kB] Get:152 http://ftpmaster.internal/ubuntu oracular/main armhf psmisc armhf 23.7-1build1 [176 kB] Get:153 http://ftpmaster.internal/ubuntu oracular/main armhf xz-utils armhf 5.6.1+really5.4.5-1 [267 kB] Get:154 http://ftpmaster.internal/ubuntu oracular/main armhf advancecomp armhf 2.5-1build1 [198 kB] Get:155 http://ftpmaster.internal/ubuntu oracular/main armhf libctf0 armhf 2.42-4ubuntu2 [87.7 kB] Get:156 http://ftpmaster.internal/ubuntu oracular/main armhf libctf-nobfd0 armhf 2.42-4ubuntu2 [88.0 kB] Get:157 http://ftpmaster.internal/ubuntu oracular/main armhf binutils-arm-linux-gnueabihf armhf 2.42-4ubuntu2 [2925 kB] Get:158 http://ftpmaster.internal/ubuntu oracular/main armhf libbinutils armhf 2.42-4ubuntu2 [460 kB] Get:159 http://ftpmaster.internal/ubuntu oracular/main armhf binutils armhf 2.42-4ubuntu2 [3072 B] Get:160 http://ftpmaster.internal/ubuntu oracular/main armhf binutils-common armhf 2.42-4ubuntu2 [217 kB] Get:161 http://ftpmaster.internal/ubuntu oracular/main armhf libsframe1 armhf 2.42-4ubuntu2 [13.1 kB] Get:162 http://ftpmaster.internal/ubuntu oracular/main armhf libubsan1 armhf 14-20240412-0ubuntu1 [1154 kB] Get:163 http://ftpmaster.internal/ubuntu oracular/main armhf libgomp1 armhf 14-20240412-0ubuntu1 [125 kB] Get:164 http://ftpmaster.internal/ubuntu oracular/main armhf libatomic1 armhf 14-20240412-0ubuntu1 [7816 B] Get:165 http://ftpmaster.internal/ubuntu oracular/main armhf libasan8 armhf 14-20240412-0ubuntu1 [2942 kB] Get:166 http://ftpmaster.internal/ubuntu oracular/main armhf g++-13 armhf 13.2.0-23ubuntu4 [14.5 kB] Get:167 http://ftpmaster.internal/ubuntu oracular/main armhf gcc-13 armhf 13.2.0-23ubuntu4 [453 kB] Get:168 http://ftpmaster.internal/ubuntu oracular/main armhf libstdc++-13-dev armhf 13.2.0-23ubuntu4 [2456 kB] Get:169 http://ftpmaster.internal/ubuntu oracular/main armhf libgcc-13-dev armhf 13.2.0-23ubuntu4 [899 kB] Get:170 http://ftpmaster.internal/ubuntu oracular/main armhf libcc1-0 armhf 14-20240412-0ubuntu1 [39.0 kB] Get:171 http://ftpmaster.internal/ubuntu oracular/main armhf cpp-13 armhf 13.2.0-23ubuntu4 [1034 B] Get:172 http://ftpmaster.internal/ubuntu oracular/main armhf gcc-13-base armhf 13.2.0-23ubuntu4 [48.9 kB] Get:173 http://ftpmaster.internal/ubuntu oracular/main armhf libisl23 armhf 0.26-3build1 [544 kB] Get:174 http://ftpmaster.internal/ubuntu oracular/main armhf libmpfr6 armhf 4.2.1-1build1 [229 kB] Get:175 http://ftpmaster.internal/ubuntu oracular/main armhf libmpc3 armhf 1.3.1-1build1 [46.7 kB] Get:176 http://ftpmaster.internal/ubuntu oracular/main armhf gcc-13-arm-linux-gnueabihf armhf 13.2.0-23ubuntu4 [16.9 MB] Get:177 http://ftpmaster.internal/ubuntu oracular/main armhf g++-13-arm-linux-gnueabihf armhf 13.2.0-23ubuntu4 [9941 kB] Get:178 http://ftpmaster.internal/ubuntu oracular/main armhf cpp-13-arm-linux-gnueabihf armhf 13.2.0-23ubuntu4 [8759 kB] Get:179 http://ftpmaster.internal/ubuntu oracular/main armhf g++ armhf 4:13.2.0-7ubuntu1 [1090 B] Get:180 http://ftpmaster.internal/ubuntu oracular/main armhf gcc armhf 4:13.2.0-7ubuntu1 [5022 B] Get:181 http://ftpmaster.internal/ubuntu oracular/main armhf cpp armhf 4:13.2.0-7ubuntu1 [22.4 kB] Get:182 http://ftpmaster.internal/ubuntu oracular/main armhf cpp-arm-linux-gnueabihf armhf 4:13.2.0-7ubuntu1 [5320 B] Get:183 http://ftpmaster.internal/ubuntu oracular/main armhf gcc-arm-linux-gnueabihf armhf 4:13.2.0-7ubuntu1 [1220 B] Get:184 http://ftpmaster.internal/ubuntu oracular/main armhf g++-arm-linux-gnueabihf armhf 4:13.2.0-7ubuntu1 [966 B] Get:185 http://ftpmaster.internal/ubuntu oracular/main armhf dpkg-dev all 1.22.6ubuntu6 [1074 kB] Get:186 http://ftpmaster.internal/ubuntu oracular/main armhf libdpkg-perl all 1.22.6ubuntu6 [268 kB] Get:187 http://ftpmaster.internal/ubuntu oracular/main armhf patch armhf 2.7.6-7build3 [110 kB] Get:188 http://ftpmaster.internal/ubuntu oracular/main armhf make armhf 4.3-4.1build2 [162 kB] Get:189 http://ftpmaster.internal/ubuntu oracular/main armhf lto-disabled-list all 48 [12.3 kB] Get:190 http://ftpmaster.internal/ubuntu oracular/main armhf libfakeroot armhf 1.33-1 [28.7 kB] Get:191 http://ftpmaster.internal/ubuntu oracular/main armhf fakeroot armhf 1.33-1 [68.6 kB] Get:192 http://ftpmaster.internal/ubuntu oracular/main armhf liblockfile-bin armhf 1.17-1build3 [10.5 kB] Get:193 http://ftpmaster.internal/ubuntu oracular/main armhf liblockfile1 armhf 1.17-1build3 [6208 B] Get:194 http://ftpmaster.internal/ubuntu oracular/main armhf lockfile-progs armhf 0.1.19+nmu1 [8410 B] Preconfiguring packages ... 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(both '/usr/bin/bzcat' and '/usr/bin/bzip2') dpkg: warning: old file '/bin/bzcat' is the same as several new files! (both '/usr/bin/bunzip2' and '/usr/bin/bzcat') dpkg: warning: old file '/bin/bzcat' is the same as several new files! (both '/usr/bin/bzcat' and '/usr/bin/bzip2') dpkg: warning: old file '/bin/bunzip2' is the same as several new files! (both '/usr/bin/bunzip2' and '/usr/bin/bzcat') dpkg: warning: old file '/bin/bunzip2' is the same as several new files! (both '/usr/bin/bzcat' and '/usr/bin/bzip2') Preparing to unpack .../libbz2-1.0_1.0.8-5.1_armhf.deb ... Unpacking libbz2-1.0:armhf (1.0.8-5.1) over (1.0.8-5build1) ... Setting up libbz2-1.0:armhf (1.0.8-5.1) ... (Reading database ... 14953 files and directories currently installed.) Preparing to unpack .../zlib1g_1%3a1.3.dfsg-3.1ubuntu2_armhf.deb ... Unpacking zlib1g:armhf (1:1.3.dfsg-3.1ubuntu2) over (1:1.2.13.dfsg-1ubuntu5) ... Setting up zlib1g:armhf (1:1.3.dfsg-3.1ubuntu2) ... 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Adding 'diversion of /lib/arm-linux-gnueabihf/libtirpc.so.3 to /lib/arm-linux-gnueabihf/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libtirpc.so.3.0.0 to /lib/arm-linux-gnueabihf/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:armhf (1.3.4+ds-1.1build1) ... Preparing to unpack .../5-linux-libc-dev_6.8.0-31.31_armhf.deb ... Unpacking linux-libc-dev:armhf (6.8.0-31.31) over (6.5.0-9.9) ... Selecting previously unselected package gcc-14-base:armhf. Preparing to unpack .../6-gcc-14-base_14-20240412-0ubuntu1_armhf.deb ... Unpacking gcc-14-base:armhf (14-20240412-0ubuntu1) ... Setting up gcc-14-base:armhf (14-20240412-0ubuntu1) ... (Reading database ... 14977 files and directories currently installed.) Preparing to unpack .../libgcc-s1_14-20240412-0ubuntu1_armhf.deb ... Unpacking libgcc-s1:armhf (14-20240412-0ubuntu1) over (13.2.0-4ubuntu3) ... Setting up libgcc-s1:armhf (14-20240412-0ubuntu1) ... 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Adding 'diversion of /lib/arm-linux-gnueabihf/libhistory.so.8 to /lib/arm-linux-gnueabihf/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libhistory.so.8.2 to /lib/arm-linux-gnueabihf/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libreadline.so.8 to /lib/arm-linux-gnueabihf/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libreadline.so.8.2 to /lib/arm-linux-gnueabihf/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:armhf (8.2-4build1) ... Preparing to unpack .../pinentry-curses_1.2.1-3ubuntu5_armhf.deb ... Unpacking pinentry-curses (1.2.1-3ubuntu5) over (1.2.1-1ubuntu1) ... Preparing to unpack .../init-system-helpers_1.66ubuntu1_all.deb ... Unpacking init-system-helpers (1.66ubuntu1) over (1.65.2ubuntu1) ... Setting up init-system-helpers (1.66ubuntu1) ... 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Adding 'diversion of /lib/arm-linux-gnueabihf/libe2p.so.2 to /lib/arm-linux-gnueabihf/libe2p.so.2.usr-is-merged by libext2fs2t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libe2p.so.2.3 to /lib/arm-linux-gnueabihf/libe2p.so.2.3.usr-is-merged by libext2fs2t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libext2fs.so.2 to /lib/arm-linux-gnueabihf/libext2fs.so.2.usr-is-merged by libext2fs2t64' Adding 'diversion of /lib/arm-linux-gnueabihf/libext2fs.so.2.4 to /lib/arm-linux-gnueabihf/libext2fs.so.2.4.usr-is-merged by libext2fs2t64' Unpacking libext2fs2t64:armhf (1.47.0-2.4~exp1ubuntu4) ... Setting up libcom-err2:armhf (1.47.0-2.4~exp1ubuntu4) ... Setting up libext2fs2t64:armhf (1.47.0-2.4~exp1ubuntu4) ... (Reading database ... 14977 files and directories currently installed.) Preparing to unpack .../e2fsprogs_1.47.0-2.4~exp1ubuntu4_armhf.deb ... 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Setting up libcryptsetup12:armhf (2:2.7.0-1ubuntu4) ... Setting up libfdisk1:armhf (2.39.3-9ubuntu6) ... Setting up libkmod2:armhf (31+20240202-2ubuntu7) ... Setting up libsystemd-shared:armhf (255.4-1ubuntu8) ... Setting up systemd-dev (255.4-1ubuntu8) ... Setting up mount (2.39.3-9ubuntu6) ... Setting up systemd (255.4-1ubuntu8) ... Installing new version of config file /etc/systemd/journald.conf ... Installing new version of config file /etc/systemd/logind.conf ... Installing new version of config file /etc/systemd/networkd.conf ... Installing new version of config file /etc/systemd/pstore.conf ... Installing new version of config file /etc/systemd/sleep.conf ... Installing new version of config file /etc/systemd/system.conf ... Installing new version of config file /etc/systemd/user.conf ... Initializing machine ID from random generator. Setting up systemd-sysv (255.4-1ubuntu8) ... (Reading database ... 14976 files and directories currently installed.) 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Setting up libgdbm-compat4t64:armhf (1.23-5.1build1) ... Setting up psmisc (23.7-1build1) ... Setting up libtirpc-common (1.3.4+ds-1.1build1) ... Setting up libsqlite3-0:armhf (3.45.1-1ubuntu2) ... Setting up binutils-common:armhf (2.42-4ubuntu2) ... Setting up linux-libc-dev:armhf (6.8.0-31.31) ... Setting up libctf-nobfd0:armhf (2.42-4ubuntu2) ... Setting up krb5-locales (1.20.1-6ubuntu2) ... Setting up libgomp1:armhf (14-20240412-0ubuntu1) ... Setting up bzip2 (1.0.8-5.1) ... Setting up libsframe1:armhf (2.42-4ubuntu2) ... Setting up libfakeroot:armhf (1.33-1) ... Setting up libjansson4:armhf (2.14-2build2) ... Setting up libkrb5support0:armhf (1.20.1-6ubuntu2) ... Setting up tzdata (2024a-2ubuntu1) ... Current default time zone: 'Etc/UTC' Local time is now: Tue May 14 01:10:26 UTC 2024. Universal Time is now: Tue May 14 01:10:26 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up fakeroot (1.33-1) ... Setting up rpcsvc-proto (1.4.2-0ubuntu7) ... Setting up gcc-13-base:armhf (13.2.0-23ubuntu4) ... Setting up make (4.3-4.1build2) ... Setting up libmpfr6:armhf (4.2.1-1build1) ... Setting up bash-completion (1:2.11-8) ... Setting up xz-utils (5.6.1+really5.4.5-1) ... Setting up perl-modules-5.38 (5.38.2-3.2build2) ... Setting up libproc2-0:armhf (2:4.0.4-4ubuntu3) ... Setting up libpng16-16t64:armhf (1.6.43-5build1) ... Setting up libmpc3:armhf (1.3.1-1build1) ... Setting up libatomic1:armhf (14-20240412-0ubuntu1) ... Setting up patch (2.7.6-7build3) ... Setting up libss2:armhf (1.47.0-2.4~exp1ubuntu4) ... Setting up libncursesw6:armhf (6.4+20240113-1ubuntu2) ... Setting up libk5crypto3:armhf (1.20.1-6ubuntu2) ... Setting up logsave (1.47.0-2.4~exp1ubuntu4) ... Setting up libdb5.3t64:armhf (5.3.28+dfsg2-7) ... Setting up libubsan1:armhf (14-20240412-0ubuntu1) ... Setting up advancecomp (2.5-1build1) ... Setting up sensible-utils (0.0.22) ... Setting up uuid-runtime (2.39.3-9ubuntu6) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of restart. Setting up libcrypt-dev:armhf (1:4.4.36-4build1) ... Setting up libasan8:armhf (14-20240412-0ubuntu1) ... Setting up procps (2:4.0.4-4ubuntu3) ... Installing new version of config file /etc/sysctl.conf ... Setting up mawk (1.3.4.20240123-1build1) ... Setting up libkrb5-3:armhf (1.20.1-6ubuntu2) ... Setting up liblockfile1:armhf (1.17-1build3) ... Setting up libperl5.38t64:armhf (5.38.2-3.2build2) ... Setting up libbinutils:armhf (2.42-4ubuntu2) ... Setting up libisl23:armhf (0.26-3build1) ... Setting up libc-dev-bin (2.39-0ubuntu8) ... Setting up openssl (3.0.13-0ubuntu3) ... Setting up libgpg-error-l10n (1.47-3build2) ... Setting up readline-common (8.2-4build1) ... Setting up libcc1-0:armhf (14-20240412-0ubuntu1) ... Setting up liblocale-gettext-perl (1.07-6ubuntu5) ... Setting up libctf0:armhf (2.42-4ubuntu2) ... Setting up pinentry-curses (1.2.1-3ubuntu5) ... Setting up apt-utils (2.7.14build2) ... Setting up cpp-13-arm-linux-gnueabihf (13.2.0-23ubuntu4) ... Setting up debconf-i18n (1.5.86ubuntu1) ... Setting up e2fsprogs (1.47.0-2.4~exp1ubuntu4) ... Setting up ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... rehash: warning: skipping ca-certificates.crt,it does not contain exactly one certificate or CRL 14 added, 5 removed; done. Setting up perl (5.38.2-3.2build2) ... Setting up optipng (0.7.8+ds-1build2) ... Setting up lockfile-progs (0.1.19+nmu1) ... Setting up libgssapi-krb5-2:armhf (1.20.1-6ubuntu2) ... Setting up libdpkg-perl (1.22.6ubuntu6) ... Setting up libreadline8t64:armhf (8.2-4build1) ... Setting up libgcc-13-dev:armhf (13.2.0-23ubuntu4) ... Setting up gpgconf (2.4.4-2ubuntu17) ... Setting up libc6-dev:armhf (2.39-0ubuntu8) ... Setting up binutils-arm-linux-gnueabihf (2.42-4ubuntu2) ... Setting up gpg (2.4.4-2ubuntu17) ... Setting up cpp-arm-linux-gnueabihf (4:13.2.0-7ubuntu1) ... Setting up libstdc++-13-dev:armhf (13.2.0-23ubuntu4) ... Setting up gpg-agent (2.4.4-2ubuntu17) ... Setting up cpp-13 (13.2.0-23ubuntu4) ... Setting up libtirpc3t64:armhf (1.3.4+ds-1.1build1) ... Setting up binutils (2.42-4ubuntu2) ... Setting up gcc-13-arm-linux-gnueabihf (13.2.0-23ubuntu4) ... Setting up dpkg-dev (1.22.6ubuntu6) ... Setting up libtirpc-dev:armhf (1.3.4+ds-1.1build1) ... Setting up gcc-13 (13.2.0-23ubuntu4) ... Setting up cpp (4:13.2.0-7ubuntu1) ... Setting up libnsl2:armhf (1.3.0-3build3) ... Setting up gcc-arm-linux-gnueabihf (4:13.2.0-7ubuntu1) ... Setting up g++-13-arm-linux-gnueabihf (13.2.0-23ubuntu4) ... Setting up g++-arm-linux-gnueabihf (4:13.2.0-7ubuntu1) ... Setting up g++-13 (13.2.0-23ubuntu4) ... Setting up libnss-nisplus:armhf (1.3-5build1) ... Setting up gcc (4:13.2.0-7ubuntu1) ... Setting up libnss-nis:armhf (3.1-0ubuntu7) ... Setting up g++ (4:13.2.0-7ubuntu1) ... Setting up libnsl-dev:armhf (1.3.0-3build3) ... Processing triggers for libc-bin (2.39-0ubuntu8) ... Processing triggers for debianutils (5.17build1) ... (Reading database ... 15019 files and directories currently installed.) Purging configuration files for libssl3:armhf (3.0.10-1ubuntu2) ... Processing triggers for ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-28432901 armhf oracular -c chroot:build-PACKAGEBUILD-28432901 --arch=armhf --dist=oracular --nolog openstructure_2.5.0-1ubuntu5.dsc Initiating build PACKAGEBUILD-28432901 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 5.4.0-177-generic #197-Ubuntu SMP Thu Mar 28 22:51:24 UTC 2024 armv7l sbuild (Debian sbuild) 0.79.0 (05 February 2020) on bos02-arm64-031.buildd +==============================================================================+ | openstructure 2.5.0-1ubuntu5 (armhf) Tue, 14 May 2024 01:10:35 +0000 | +==============================================================================+ Package: openstructure Version: 2.5.0-1ubuntu5 Source Version: 2.5.0-1ubuntu5 Distribution: oracular Machine Architecture: arm64 Host Architecture: armhf Build Architecture: armhf Build Type: any I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-28432901/chroot-autobuild' with '<>' I: NOTICE: Log filtering will replace 'build/openstructure-51GdAy/resolver-nfxOa7' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- openstructure_2.5.0-1ubuntu5.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/openstructure-51GdAy/openstructure-2.5.0' with '<>' I: NOTICE: Log filtering will replace 'build/openstructure-51GdAy' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: clustalw, cmake, debhelper-compat (= 13), dh-python, dssp, libboost-all-dev, libeigen3-dev, libfftw3-dev, libglu1-mesa-dev, libpng-dev, libqt5opengl5-dev, libsqlite3-dev, libtiff-dev, python3-dev, python3-matplotlib, python3-numpy, python3-pil, python3-pyqt5, python3-scipy, qtbase5-dev, sip-dev, voronota, build-essential, fakeroot Filtered Build-Depends: clustalw, cmake, debhelper-compat (= 13), dh-python, dssp, libboost-all-dev, libeigen3-dev, libfftw3-dev, libglu1-mesa-dev, libpng-dev, libqt5opengl5-dev, libsqlite3-dev, libtiff-dev, python3-dev, python3-matplotlib, python3-numpy, python3-pil, python3-pyqt5, python3-scipy, qtbase5-dev, sip-dev, voronota, build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<>/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [960 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [542 B] Get:5 copy:/<>/apt_archive ./ Packages [579 B] Fetched 2081 B in 0s (96.2 kB/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: apt-utils bash-completion ca-certificates debconf-i18n krb5-locales libgpg-error-l10n libgpm2 libip4tc2 liblocale-gettext-perl libnsl-dev libnsl2 libnss-nis libnss-nisplus libtext-charwidth-perl libtext-iconv-perl libtext-wrapi18n-perl libtirpc-common libtirpc-dev libtirpc3t64 libunistring2 openssl perl-modules-5.36 psmisc uuid-runtime Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev blt clustalw cmake cmake-data debhelper debugedit dh-autoreconf dh-python dh-strip-nondeterminism dssp dwz file fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-lyx gettext gettext-base gfortran-13 gfortran-13-arm-linux-gnueabihf groff-base ibverbs-providers icu-devtools intltool-debian libarchive-zip-perl libarchive13t64 libavahi-client3 libavahi-common-data libavahi-common3 libblas3 libboost-all-dev libboost-atomic-dev libboost-atomic1.83-dev libboost-atomic1.83.0 libboost-chrono-dev libboost-chrono1.83-dev libboost-chrono1.83.0t64 libboost-container-dev libboost-container1.83-dev libboost-container1.83.0 libboost-context-dev libboost-context1.83-dev libboost-context1.83.0 libboost-coroutine-dev libboost-coroutine1.83-dev libboost-coroutine1.83.0 libboost-date-time-dev libboost-date-time1.83-dev libboost-date-time1.83.0 libboost-dev libboost-exception-dev libboost-exception1.83-dev libboost-fiber-dev libboost-fiber1.83-dev libboost-fiber1.83.0 libboost-filesystem-dev libboost-filesystem1.83-dev libboost-filesystem1.83.0 libboost-graph-dev libboost-graph-parallel-dev libboost-graph-parallel1.83-dev libboost-graph-parallel1.83.0 libboost-graph1.83-dev libboost-graph1.83.0 libboost-iostreams-dev libboost-iostreams1.83-dev libboost-iostreams1.83.0 libboost-json-dev libboost-json1.83-dev libboost-json1.83.0 libboost-locale-dev libboost-locale1.83-dev libboost-locale1.83.0 libboost-log-dev libboost-log1.83-dev libboost-log1.83.0 libboost-math-dev libboost-math1.83-dev libboost-math1.83.0 libboost-mpi-dev libboost-mpi-python-dev libboost-mpi-python1.83-dev libboost-mpi-python1.83.0 libboost-mpi1.83-dev libboost-mpi1.83.0 libboost-nowide-dev libboost-nowide1.83-dev libboost-nowide1.83.0 libboost-numpy-dev libboost-numpy1.83-dev libboost-numpy1.83.0 libboost-program-options-dev libboost-program-options1.83-dev libboost-program-options1.83.0 libboost-python-dev libboost-python1.83-dev libboost-python1.83.0 libboost-random-dev libboost-random1.83-dev libboost-random1.83.0 libboost-regex-dev libboost-regex1.83-dev libboost-regex1.83.0 libboost-serialization-dev libboost-serialization1.83-dev libboost-serialization1.83.0 libboost-stacktrace-dev libboost-stacktrace1.83-dev libboost-stacktrace1.83.0 libboost-system-dev libboost-system1.83-dev libboost-system1.83.0 libboost-test-dev libboost-test1.83-dev libboost-test1.83.0 libboost-thread-dev libboost-thread1.83-dev libboost-thread1.83.0 libboost-timer-dev libboost-timer1.83-dev libboost-timer1.83.0 libboost-tools-dev libboost-type-erasure-dev libboost-type-erasure1.83-dev libboost-type-erasure1.83.0 libboost-url-dev libboost-url1.83-dev libboost-url1.83.0 libboost-wave-dev libboost-wave1.83-dev libboost-wave1.83.0 libboost1.83-dev libboost1.83-tools-dev libbrotli1 libbsd0 libcbor0.10 libcifpp-data libcifpp5 libcups2t64 libcurl4t64 libdbus-1-3 libdebhelper-perl libdeflate-dev libdeflate0 libdouble-conversion3 libdrm-amdgpu1 libdrm-common libdrm-nouveau2 libdrm-radeon1 libdrm2 libdw1t64 libedit2 libegl-dev libegl-mesa0 libegl1 libeigen3-dev libelf1t64 libevdev2 libevent-2.1-7t64 libevent-core-2.1-7t64 libevent-dev libevent-extra-2.1-7t64 libevent-openssl-2.1-7t64 libevent-pthreads-2.1-7t64 libexpat1 libexpat1-dev libfabric1 libfftw3-bin libfftw3-dev libfftw3-double3 libfftw3-single3 libfido2-1 libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libfribidi0 libgbm1 libgfortran-13-dev libgfortran5 libgl-dev libgl1 libgl1-mesa-dri libglapi-mesa libgles-dev libgles1 libgles2 libglib2.0-0t64 libglu1-mesa libglu1-mesa-dev libglvnd0 libglx-dev libglx-mesa0 libglx0 libgraphite2-3 libgudev-1.0-0 libharfbuzz0b libhwloc-dev libhwloc-plugins libhwloc15 libibverbs-dev libibverbs1 libice6 libicu-dev libicu74 libimagequant0 libinput-bin libinput10 libjbig-dev libjbig0 libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev libjs-jquery libjs-jquery-ui libjs-sphinxdoc libjs-underscore libjsoncpp25 liblapack3 liblbfgsb0 liblcms2-2 libldap2 liblerc-dev liblerc4 libllvm17t64 libltdl-dev libltdl7 liblzma-dev libmagic-mgc libmagic1t64 libmd4c0 libmtdev1t64 libmunge2 libnghttp2-14 libnl-3-200 libnl-3-dev libnl-route-3-200 libnl-route-3-dev libnuma-dev libnuma1 libopengl-dev libopengl0 libopenjp2-7 libopenmpi-dev libopenmpi3t64 libpciaccess0 libpcre2-16-0 libpipeline1 libpkgconf3 libpmix-dev libpmix2t64 libpng-dev libpsl5t64 libpthread-stubs0-dev libpython3-dev libpython3-stdlib libpython3.12-dev libpython3.12-minimal libpython3.12-stdlib libpython3.12t64 libqhull-r8.0 libqt5concurrent5t64 libqt5core5t64 libqt5dbus5t64 libqt5designer5 libqt5gui5t64 libqt5help5 libqt5network5t64 libqt5opengl5-dev libqt5opengl5t64 libqt5printsupport5t64 libqt5sql5t64 libqt5test5t64 libqt5widgets5t64 libqt5xml5t64 libraqm0 librdmacm1t64 librhash0 librtmp1 libsasl2-2 libsasl2-modules-db libsensors-config libsensors5 libsharpyuv-dev libsharpyuv0 libsm6 libsqlite3-dev libssh-4 libsub-override-perl libtcl8.6 libtiff-dev libtiff6 libtiffxx6 libtk8.6 libtool libuchardet0 libuv1t64 libvulkan-dev libvulkan1 libwacom-common libwacom9 libwayland-client0 libwayland-server0 libwebp-dev libwebp7 libwebpdecoder3 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libx11-dev libx11-xcb1 libxau-dev libxau6 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-icccm4 libxcb-image0 libxcb-keysyms1 libxcb-present0 libxcb-randr0 libxcb-render-util0 libxcb-render0 libxcb-shape0 libxcb-shm0 libxcb-sync1 libxcb-util1 libxcb-xfixes0 libxcb-xinerama0 libxcb-xinput0 libxcb-xkb1 libxcb1 libxcb1-dev libxdmcp-dev libxdmcp6 libxext-dev libxext6 libxfixes3 libxft2 libxkbcommon-x11-0 libxkbcommon0 libxml2 libxnvctrl0 libxrender1 libxshmfence1 libxslt1.1 libxss1 libxxf86vm1 libzstd-dev m4 man-db media-types mpi-default-bin mpi-default-dev netbase ocl-icd-libopencl1 openmpi-bin openmpi-common openssh-client pkg-config pkgconf pkgconf-bin po-debconf python-matplotlib-data python3 python3-appdirs python3-attr python3-brotli python3-contourpy python3-cycler python3-dateutil python3-decorator python3-dev python3-fonttools python3-fs python3-kiwisolver python3-lxml python3-lz4 python3-matplotlib python3-minimal python3-mpmath python3-numpy python3-packaging python3-pil python3-pil.imagetk python3-pkg-resources python3-pyparsing python3-pyqt5 python3-pyqt5.sip python3-scipy python3-setuptools python3-six python3-sympy python3-tk python3-tz python3-ufolib2 python3-unicodedata2 python3.12 python3.12-dev python3.12-minimal qt5-qmake qt5-qmake-bin qtbase5-dev qtbase5-dev-tools qtchooser shared-mime-info sip-dev tk8.6-blt2.5 unicode-data voronota x11-common x11proto-dev xkb-data xorg-sgml-doctools xtrans-dev zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc blt-demo clustalx seaview cmake-doc cmake-format elpa-cmake-mode ninja-build dh-make flit python3-build python3-installer python3-wheel gettext-doc libasprintf-dev libgettextpo-dev gfortran-13-doc libcoarrays-dev groff lrzip libboost-doc graphviz libboost1.83-doc gccxml libboost-contract1.83-dev libmpfrc++-dev libntl-dev xsltproc doxygen docbook-xml docbook-xsl default-jdk fop cups-common libeigen3-doc libfftw3-doc low-memory-monitor icu-doc libjs-jquery-ui-docs liblcms2-utils libtool-doc liblzma-doc openmpi-doc pciutils libthai0 qgnomeplatform-qt5 qt5-image-formats-plugins lm-sensors sqlite3-doc tcl8.6 tk8.6 gcj-jdk libwacom-bin libx11-doc libxcb-doc libxext-doc m4-doc apparmor less www-browser opencl-icd gfortran | fortran-compiler keychain libpam-ssh monkeysphere ssh-askpass libmail-box-perl python3-doc python3-venv python-attr-doc python-cycler-doc python-lxml-doc cm-super-minimal dvipng ffmpeg fonts-staypuft ghostscript gir1.2-gtk-3.0 inkscape ipython3 librsvg2-common python3-cairocffi python3-gi python3-gi-cairo python3-gobject python3-sip python3-tornado texlive-extra-utils texlive-latex-extra python-mpmath-doc python3-gmpy2 gfortran python3-pytest python-pil-doc python-pyparsing-doc python-scipy-doc python-setuptools-doc texlive-fonts-extra python-sympy-doc tix python3-tk-dbg python3.12-venv python3.12-doc binfmt-support default-libmysqlclient-dev firebird-dev libpq-dev unixodbc-dev python-sip-doc Recommended packages: curl | wget | lynx dbus libarchive-cpio-perl libgl1-amber-dri libglib2.0-data xdg-user-dirs javascript-common libldap-common libcoarrays-openmpi-dev libpng-tools publicsuffix qttranslations5-l10n libqt5svg5 qt5-gtk-platformtheme qtwayland5 libcups2 libqt5sql5-sqlite | libqt5sql5-mysql | libqt5sql5-odbc | libqt5sql5-psql | libqt5sql5-tds | libqt5sql5-ibase libssl3 libsasl2-modules mesa-vulkan-drivers | vulkan-icd xauth libmail-sendmail-perl python3-bs4 python3-cssselect python3-html5lib python3-olefile isympy-common python3-sip-dev The following NEW packages will be installed: autoconf automake autopoint autotools-dev blt clustalw cmake cmake-data debhelper debugedit dh-autoreconf dh-python dh-strip-nondeterminism dssp dwz file fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-lyx gettext gettext-base gfortran-13 gfortran-13-arm-linux-gnueabihf groff-base ibverbs-providers icu-devtools intltool-debian libarchive-zip-perl libarchive13t64 libavahi-client3 libavahi-common-data libavahi-common3 libblas3 libboost-all-dev libboost-atomic-dev libboost-atomic1.83-dev libboost-atomic1.83.0 libboost-chrono-dev libboost-chrono1.83-dev libboost-chrono1.83.0t64 libboost-container-dev libboost-container1.83-dev libboost-container1.83.0 libboost-context-dev libboost-context1.83-dev libboost-context1.83.0 libboost-coroutine-dev libboost-coroutine1.83-dev libboost-coroutine1.83.0 libboost-date-time-dev libboost-date-time1.83-dev libboost-date-time1.83.0 libboost-dev libboost-exception-dev libboost-exception1.83-dev libboost-fiber-dev libboost-fiber1.83-dev libboost-fiber1.83.0 libboost-filesystem-dev libboost-filesystem1.83-dev libboost-filesystem1.83.0 libboost-graph-dev libboost-graph-parallel-dev libboost-graph-parallel1.83-dev libboost-graph-parallel1.83.0 libboost-graph1.83-dev libboost-graph1.83.0 libboost-iostreams-dev libboost-iostreams1.83-dev libboost-iostreams1.83.0 libboost-json-dev libboost-json1.83-dev libboost-json1.83.0 libboost-locale-dev libboost-locale1.83-dev libboost-locale1.83.0 libboost-log-dev libboost-log1.83-dev libboost-log1.83.0 libboost-math-dev libboost-math1.83-dev libboost-math1.83.0 libboost-mpi-dev libboost-mpi-python-dev libboost-mpi-python1.83-dev libboost-mpi-python1.83.0 libboost-mpi1.83-dev libboost-mpi1.83.0 libboost-nowide-dev libboost-nowide1.83-dev libboost-nowide1.83.0 libboost-numpy-dev libboost-numpy1.83-dev libboost-numpy1.83.0 libboost-program-options-dev libboost-program-options1.83-dev libboost-program-options1.83.0 libboost-python-dev libboost-python1.83-dev libboost-python1.83.0 libboost-random-dev libboost-random1.83-dev libboost-random1.83.0 libboost-regex-dev libboost-regex1.83-dev libboost-regex1.83.0 libboost-serialization-dev libboost-serialization1.83-dev libboost-serialization1.83.0 libboost-stacktrace-dev libboost-stacktrace1.83-dev libboost-stacktrace1.83.0 libboost-system-dev libboost-system1.83-dev libboost-system1.83.0 libboost-test-dev libboost-test1.83-dev libboost-test1.83.0 libboost-thread-dev libboost-thread1.83-dev libboost-thread1.83.0 libboost-timer-dev libboost-timer1.83-dev libboost-timer1.83.0 libboost-tools-dev libboost-type-erasure-dev libboost-type-erasure1.83-dev libboost-type-erasure1.83.0 libboost-url-dev libboost-url1.83-dev libboost-url1.83.0 libboost-wave-dev libboost-wave1.83-dev libboost-wave1.83.0 libboost1.83-dev libboost1.83-tools-dev libbrotli1 libbsd0 libcbor0.10 libcifpp-data libcifpp5 libcups2t64 libcurl4t64 libdbus-1-3 libdebhelper-perl libdeflate-dev libdeflate0 libdouble-conversion3 libdrm-amdgpu1 libdrm-common libdrm-nouveau2 libdrm-radeon1 libdrm2 libdw1t64 libedit2 libegl-dev libegl-mesa0 libegl1 libeigen3-dev libelf1t64 libevdev2 libevent-2.1-7t64 libevent-core-2.1-7t64 libevent-dev libevent-extra-2.1-7t64 libevent-openssl-2.1-7t64 libevent-pthreads-2.1-7t64 libexpat1 libexpat1-dev libfabric1 libfftw3-bin libfftw3-dev libfftw3-double3 libfftw3-single3 libfido2-1 libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libfribidi0 libgbm1 libgfortran-13-dev libgfortran5 libgl-dev libgl1 libgl1-mesa-dri libglapi-mesa libgles-dev libgles1 libgles2 libglib2.0-0t64 libglu1-mesa libglu1-mesa-dev libglvnd0 libglx-dev libglx-mesa0 libglx0 libgraphite2-3 libgudev-1.0-0 libharfbuzz0b libhwloc-dev libhwloc-plugins libhwloc15 libibverbs-dev libibverbs1 libice6 libicu-dev libicu74 libimagequant0 libinput-bin libinput10 libjbig-dev libjbig0 libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev libjs-jquery libjs-jquery-ui libjs-sphinxdoc libjs-underscore libjsoncpp25 liblapack3 liblbfgsb0 liblcms2-2 libldap2 liblerc-dev liblerc4 libllvm17t64 libltdl-dev libltdl7 liblzma-dev libmagic-mgc libmagic1t64 libmd4c0 libmtdev1t64 libmunge2 libnghttp2-14 libnl-3-200 libnl-3-dev libnl-route-3-200 libnl-route-3-dev libnuma-dev libnuma1 libopengl-dev libopengl0 libopenjp2-7 libopenmpi-dev libopenmpi3t64 libpciaccess0 libpcre2-16-0 libpipeline1 libpkgconf3 libpmix-dev libpmix2t64 libpng-dev libpsl5t64 libpthread-stubs0-dev libpython3-dev libpython3-stdlib libpython3.12-dev libpython3.12-minimal libpython3.12-stdlib libpython3.12t64 libqhull-r8.0 libqt5concurrent5t64 libqt5core5t64 libqt5dbus5t64 libqt5designer5 libqt5gui5t64 libqt5help5 libqt5network5t64 libqt5opengl5-dev libqt5opengl5t64 libqt5printsupport5t64 libqt5sql5t64 libqt5test5t64 libqt5widgets5t64 libqt5xml5t64 libraqm0 librdmacm1t64 librhash0 librtmp1 libsasl2-2 libsasl2-modules-db libsensors-config libsensors5 libsharpyuv-dev libsharpyuv0 libsm6 libsqlite3-dev libssh-4 libsub-override-perl libtcl8.6 libtiff-dev libtiff6 libtiffxx6 libtk8.6 libtool libuchardet0 libuv1t64 libvulkan-dev libvulkan1 libwacom-common libwacom9 libwayland-client0 libwayland-server0 libwebp-dev libwebp7 libwebpdecoder3 libwebpdemux2 libwebpmux3 libx11-6 libx11-data libx11-dev libx11-xcb1 libxau-dev libxau6 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-icccm4 libxcb-image0 libxcb-keysyms1 libxcb-present0 libxcb-randr0 libxcb-render-util0 libxcb-render0 libxcb-shape0 libxcb-shm0 libxcb-sync1 libxcb-util1 libxcb-xfixes0 libxcb-xinerama0 libxcb-xinput0 libxcb-xkb1 libxcb1 libxcb1-dev libxdmcp-dev libxdmcp6 libxext-dev libxext6 libxfixes3 libxft2 libxkbcommon-x11-0 libxkbcommon0 libxml2 libxnvctrl0 libxrender1 libxshmfence1 libxslt1.1 libxss1 libxxf86vm1 libzstd-dev m4 man-db media-types mpi-default-bin mpi-default-dev netbase ocl-icd-libopencl1 openmpi-bin openmpi-common openssh-client pkg-config pkgconf pkgconf-bin po-debconf python-matplotlib-data python3 python3-appdirs python3-attr python3-brotli python3-contourpy python3-cycler python3-dateutil python3-decorator python3-dev python3-fonttools python3-fs python3-kiwisolver python3-lxml python3-lz4 python3-matplotlib python3-minimal python3-mpmath python3-numpy python3-packaging python3-pil python3-pil.imagetk python3-pkg-resources python3-pyparsing python3-pyqt5 python3-pyqt5.sip python3-scipy python3-setuptools python3-six python3-sympy python3-tk python3-tz python3-ufolib2 python3-unicodedata2 python3.12 python3.12-dev python3.12-minimal qt5-qmake qt5-qmake-bin qtbase5-dev qtbase5-dev-tools qtchooser sbuild-build-depends-main-dummy shared-mime-info sip-dev tk8.6-blt2.5 unicode-data voronota x11-common x11proto-dev xkb-data xorg-sgml-doctools xtrans-dev zlib1g-dev 0 upgraded, 424 newly installed, 0 to remove and 0 not upgraded. Need to get 231 MB of archives. After this operation, 1109 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [790 B] Get:2 http://ftpmaster.internal/ubuntu oracular/main armhf libpython3.12-minimal armhf 3.12.3-1 [817 kB] Get:3 http://ftpmaster.internal/ubuntu oracular/main armhf libexpat1 armhf 2.6.1-2build1 [65.9 kB] Get:4 http://ftpmaster.internal/ubuntu oracular/main armhf python3.12-minimal armhf 3.12.3-1 [2023 kB] Get:5 http://ftpmaster.internal/ubuntu oracular/main armhf python3-minimal armhf 3.12.3-0ubuntu1 [27.2 kB] Get:6 http://ftpmaster.internal/ubuntu oracular/main armhf media-types all 10.1.0 [27.5 kB] Get:7 http://ftpmaster.internal/ubuntu oracular/main armhf netbase all 6.4 [13.1 kB] Get:8 http://ftpmaster.internal/ubuntu oracular/main armhf libpython3.12-stdlib armhf 3.12.3-1 [1925 kB] Get:9 http://ftpmaster.internal/ubuntu oracular/main armhf python3.12 armhf 3.12.3-1 [651 kB] Get:10 http://ftpmaster.internal/ubuntu oracular/main armhf libpython3-stdlib armhf 3.12.3-0ubuntu1 [9896 B] Get:11 http://ftpmaster.internal/ubuntu oracular/main armhf python3 armhf 3.12.3-0ubuntu1 [24.1 kB] Get:12 http://ftpmaster.internal/ubuntu oracular/main armhf libbsd0 armhf 0.12.1-1build1 [36.5 kB] Get:13 http://ftpmaster.internal/ubuntu oracular/main armhf libdbus-1-3 armhf 1.14.10-4ubuntu4 [190 kB] Get:14 http://ftpmaster.internal/ubuntu oracular/main armhf libelf1t64 armhf 0.190-1.1build4 [49.9 kB] Get:15 http://ftpmaster.internal/ubuntu oracular/main armhf libfribidi0 armhf 1.0.13-3build1 [23.9 kB] Get:16 http://ftpmaster.internal/ubuntu oracular/main armhf libglib2.0-0t64 armhf 2.80.0-6ubuntu1 [1177 kB] Get:17 http://ftpmaster.internal/ubuntu oracular/main armhf libicu74 armhf 74.2-1ubuntu3 [10.5 MB] Get:18 http://ftpmaster.internal/ubuntu oracular/main armhf libxml2 armhf 2.9.14+dfsg-1.3ubuntu3 [595 kB] Get:19 http://ftpmaster.internal/ubuntu oracular/main armhf python3-pkg-resources all 68.1.2-2ubuntu1 [168 kB] Get:20 http://ftpmaster.internal/ubuntu oracular/main armhf shared-mime-info armhf 2.4-4 [471 kB] Get:21 http://ftpmaster.internal/ubuntu oracular/main armhf xkb-data all 2.41-2ubuntu1 [395 kB] Get:22 http://ftpmaster.internal/ubuntu oracular/main armhf libmagic-mgc armhf 1:5.45-3build1 [307 kB] Get:23 http://ftpmaster.internal/ubuntu oracular/main armhf libmagic1t64 armhf 1:5.45-3build1 [81.4 kB] Get:24 http://ftpmaster.internal/ubuntu oracular/main armhf file armhf 1:5.45-3build1 [21.1 kB] Get:25 http://ftpmaster.internal/ubuntu oracular/main armhf gettext-base armhf 0.21-14ubuntu2 [38.1 kB] Get:26 http://ftpmaster.internal/ubuntu oracular/main armhf libuchardet0 armhf 0.0.8-1build1 [73.9 kB] Get:27 http://ftpmaster.internal/ubuntu oracular/main armhf groff-base armhf 1.23.0-3build2 [946 kB] Get:28 http://ftpmaster.internal/ubuntu oracular/main armhf libnl-3-200 armhf 3.7.0-0.3build1 [49.0 kB] Get:29 http://ftpmaster.internal/ubuntu oracular/main armhf libnl-route-3-200 armhf 3.7.0-0.3build1 [162 kB] Get:30 http://ftpmaster.internal/ubuntu 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http://ftpmaster.internal/ubuntu oracular/main armhf libpipeline1 armhf 1.5.7-2 [26.2 kB] Get:41 http://ftpmaster.internal/ubuntu oracular/main armhf libpsl5t64 armhf 0.21.2-1.1build1 [55.8 kB] Get:42 http://ftpmaster.internal/ubuntu oracular/main armhf libsensors-config all 1:3.6.0-9build1 [5546 B] Get:43 http://ftpmaster.internal/ubuntu oracular/main armhf libsensors5 armhf 1:3.6.0-9build1 [24.6 kB] Get:44 http://ftpmaster.internal/ubuntu oracular/main armhf libuv1t64 armhf 1.48.0-1.1build1 [83.0 kB] Get:45 http://ftpmaster.internal/ubuntu oracular/main armhf libxau6 armhf 1:1.0.9-1build6 [6312 B] Get:46 http://ftpmaster.internal/ubuntu oracular/main armhf libxdmcp6 armhf 1:1.1.3-0ubuntu6 [8738 B] Get:47 http://ftpmaster.internal/ubuntu oracular/main armhf libxcb1 armhf 1.15-1ubuntu2 [45.2 kB] Get:48 http://ftpmaster.internal/ubuntu oracular/main armhf libx11-data all 2:1.8.7-1build1 [115 kB] Get:49 http://ftpmaster.internal/ubuntu oracular/main armhf libx11-6 armhf 2:1.8.7-1build1 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libxss1 armhf 1:1.2.3-1build3 [6500 B] Get:70 http://ftpmaster.internal/ubuntu oracular/main armhf libtk8.6 armhf 8.6.14-1build1 [681 kB] Get:71 http://ftpmaster.internal/ubuntu oracular/main armhf tk8.6-blt2.5 armhf 2.5.3+dfsg-7build1 [525 kB] Get:72 http://ftpmaster.internal/ubuntu oracular/main armhf blt armhf 2.5.3+dfsg-7build1 [4840 B] Get:73 http://ftpmaster.internal/ubuntu oracular/universe armhf clustalw armhf 2.1+lgpl-7 [249 kB] Get:74 http://ftpmaster.internal/ubuntu oracular/main armhf libarchive13t64 armhf 3.7.2-2 [330 kB] Get:75 http://ftpmaster.internal/ubuntu oracular/main armhf libsasl2-modules-db armhf 2.1.28+dfsg1-5ubuntu3 [19.2 kB] Get:76 http://ftpmaster.internal/ubuntu oracular/main armhf libsasl2-2 armhf 2.1.28+dfsg1-5ubuntu3 [49.7 kB] Get:77 http://ftpmaster.internal/ubuntu oracular/main armhf libldap2 armhf 2.6.7+dfsg-1~exp1ubuntu8 [172 kB] Get:78 http://ftpmaster.internal/ubuntu oracular/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2build7 [51.3 kB] Get:79 http://ftpmaster.internal/ubuntu oracular/main armhf libssh-4 armhf 0.10.6-2build2 [169 kB] Get:80 http://ftpmaster.internal/ubuntu oracular/main armhf libcurl4t64 armhf 8.5.0-2ubuntu10 [296 kB] Get:81 http://ftpmaster.internal/ubuntu oracular/main armhf libjsoncpp25 armhf 1.9.5-6build1 [75.3 kB] Get:82 http://ftpmaster.internal/ubuntu oracular/main armhf librhash0 armhf 1.4.3-3build1 [143 kB] Get:83 http://ftpmaster.internal/ubuntu oracular/main armhf cmake-data all 3.28.3-1build7 [2155 kB] Get:84 http://ftpmaster.internal/ubuntu oracular/main armhf cmake armhf 3.28.3-1build7 [6049 kB] Get:85 http://ftpmaster.internal/ubuntu oracular/main armhf libdebhelper-perl all 13.14.1ubuntu5 [89.8 kB] Get:86 http://ftpmaster.internal/ubuntu oracular/main armhf libtool all 2.4.7-7build1 [166 kB] Get:87 http://ftpmaster.internal/ubuntu oracular/main armhf dh-autoreconf all 20 [16.1 kB] Get:88 http://ftpmaster.internal/ubuntu oracular/main armhf libarchive-zip-perl all 1.68-1 [90.2 kB] Get:89 http://ftpmaster.internal/ubuntu oracular/main armhf libsub-override-perl all 0.10-1 [10.0 kB] Get:90 http://ftpmaster.internal/ubuntu oracular/main armhf libfile-stripnondeterminism-perl all 1.13.1-1 [18.1 kB] Get:91 http://ftpmaster.internal/ubuntu oracular/main armhf dh-strip-nondeterminism all 1.13.1-1 [5362 B] Get:92 http://ftpmaster.internal/ubuntu oracular/main armhf libdw1t64 armhf 0.190-1.1build4 [235 kB] Get:93 http://ftpmaster.internal/ubuntu oracular/main armhf debugedit armhf 1:5.0-5build2 [42.3 kB] Get:94 http://ftpmaster.internal/ubuntu oracular/main armhf dwz armhf 0.15-1build6 [116 kB] Get:95 http://ftpmaster.internal/ubuntu oracular/main armhf gettext armhf 0.21-14ubuntu2 [800 kB] Get:96 http://ftpmaster.internal/ubuntu oracular/main armhf intltool-debian all 0.35.0+20060710.6 [23.2 kB] Get:97 http://ftpmaster.internal/ubuntu oracular/main armhf po-debconf all 1.0.21+nmu1 [233 kB] Get:98 http://ftpmaster.internal/ubuntu oracular/main armhf debhelper all 13.14.1ubuntu5 [869 kB] Get:99 http://ftpmaster.internal/ubuntu oracular/main armhf python3-setuptools all 68.1.2-2ubuntu1 [396 kB] Get:100 http://ftpmaster.internal/ubuntu oracular/universe armhf dh-python all 6.20240401 [110 kB] Get:101 http://ftpmaster.internal/ubuntu oracular/universe armhf libcifpp-data all 5.0.7.1-3build1 [450 kB] Get:102 http://ftpmaster.internal/ubuntu oracular/universe armhf libcifpp5 armhf 5.0.7.1-3build1 [852 kB] Get:103 http://ftpmaster.internal/ubuntu oracular/universe armhf dssp armhf 4.2.2-2 [626 kB] Get:104 http://ftpmaster.internal/ubuntu oracular/main armhf fontconfig armhf 2.15.0-1.1ubuntu2 [189 kB] Get:105 http://ftpmaster.internal/ubuntu oracular/universe armhf fonts-lyx all 2.4.0~RC4-1 [170 kB] Get:106 http://ftpmaster.internal/ubuntu oracular/main armhf libgfortran5 armhf 14-20240412-0ubuntu1 [316 kB] Get:107 http://ftpmaster.internal/ubuntu oracular/main armhf libgfortran-13-dev armhf 13.2.0-23ubuntu4 [359 kB] Get:108 http://ftpmaster.internal/ubuntu oracular/main armhf gfortran-13-arm-linux-gnueabihf armhf 13.2.0-23ubuntu4 [9182 kB] Get:109 http://ftpmaster.internal/ubuntu oracular/main armhf gfortran-13 armhf 13.2.0-23ubuntu4 [11.7 kB] Get:110 http://ftpmaster.internal/ubuntu oracular/main armhf icu-devtools armhf 74.2-1ubuntu3 [201 kB] Get:111 http://ftpmaster.internal/ubuntu oracular/main armhf libavahi-common-data armhf 0.8-13ubuntu6 [29.7 kB] Get:112 http://ftpmaster.internal/ubuntu oracular/main armhf libavahi-common3 armhf 0.8-13ubuntu6 [20.2 kB] Get:113 http://ftpmaster.internal/ubuntu oracular/main armhf libavahi-client3 armhf 0.8-13ubuntu6 [24.2 kB] Get:114 http://ftpmaster.internal/ubuntu oracular/main armhf libblas3 armhf 3.12.0-3build1 [123 kB] Get:115 http://ftpmaster.internal/ubuntu oracular/main armhf libboost1.83-dev armhf 1.83.0-2.1ubuntu3 [10.7 MB] Get:116 http://ftpmaster.internal/ubuntu oracular/main armhf libboost-dev armhf 1.83.0.1ubuntu2 [4310 B] Get:117 http://ftpmaster.internal/ubuntu oracular/main armhf libboost1.83-tools-dev armhf 1.83.0-2.1ubuntu3 [1467 kB] Get:118 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-tools-dev armhf 1.83.0.1ubuntu2 [4238 B] Get:119 http://ftpmaster.internal/ubuntu oracular/main armhf libboost-atomic1.83.0 armhf 1.83.0-2.1ubuntu3 [239 kB] Get:120 http://ftpmaster.internal/ubuntu oracular/main armhf libboost-atomic1.83-dev armhf 1.83.0-2.1ubuntu3 [234 kB] Get:121 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-atomic-dev armhf 1.83.0.1ubuntu2 [4358 B] Get:122 http://ftpmaster.internal/ubuntu oracular/main armhf libboost-chrono1.83.0t64 armhf 1.83.0-2.1ubuntu3 [244 kB] Get:123 http://ftpmaster.internal/ubuntu oracular/main armhf libboost-chrono1.83-dev armhf 1.83.0-2.1ubuntu3 [245 kB] Get:124 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-chrono-dev armhf 1.83.0.1ubuntu2 [4670 B] Get:125 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-container1.83.0 armhf 1.83.0-2.1ubuntu3 [262 kB] Get:126 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-container1.83-dev armhf 1.83.0-2.1ubuntu3 [264 kB] Get:127 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-container-dev armhf 1.83.0.1ubuntu2 [4530 B] Get:128 http://ftpmaster.internal/ubuntu oracular/main armhf libboost-date-time1.83.0 armhf 1.83.0-2.1ubuntu3 [236 kB] Get:129 http://ftpmaster.internal/ubuntu oracular/main armhf libboost-serialization1.83.0 armhf 1.83.0-2.1ubuntu3 [332 kB] Get:130 http://ftpmaster.internal/ubuntu oracular/main armhf libboost-serialization1.83-dev armhf 1.83.0-2.1ubuntu3 [404 kB] Get:131 http://ftpmaster.internal/ubuntu oracular/main armhf libboost-date-time1.83-dev armhf 1.83.0-2.1ubuntu3 [239 kB] Get:132 http://ftpmaster.internal/ubuntu oracular/main armhf libboost-system1.83.0 armhf 1.83.0-2.1ubuntu3 [236 kB] Get:133 http://ftpmaster.internal/ubuntu oracular/main armhf libboost-system1.83-dev armhf 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http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-date-time-dev armhf 1.83.0.1ubuntu2 [4058 B] Get:143 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-exception1.83-dev armhf 1.83.0-2.1ubuntu3 [230 kB] Get:144 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-exception-dev armhf 1.83.0.1ubuntu2 [4058 B] Get:145 http://ftpmaster.internal/ubuntu oracular/main armhf libboost-filesystem1.83.0 armhf 1.83.0-2.1ubuntu3 [280 kB] Get:146 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-filesystem1.83-dev armhf 1.83.0-2.1ubuntu3 [291 kB] Get:147 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-fiber1.83.0 armhf 1.83.0-2.1ubuntu3 [252 kB] Get:148 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-fiber1.83-dev armhf 1.83.0-2.1ubuntu3 [267 kB] Get:149 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-fiber-dev armhf 1.83.0.1ubuntu2 [4486 B] Get:150 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-filesystem-dev armhf 1.83.0.1ubuntu2 [4094 B] Get:151 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-graph1.83.0 armhf 1.83.0-2.1ubuntu3 [352 kB] Get:152 http://ftpmaster.internal/ubuntu oracular/main armhf libboost-regex1.83.0 armhf 1.83.0-2.1ubuntu3 [320 kB] Get:153 http://ftpmaster.internal/ubuntu oracular/main armhf libicu-dev armhf 74.2-1ubuntu3 [11.6 MB] Get:154 http://ftpmaster.internal/ubuntu oracular/main armhf libboost-regex1.83-dev armhf 1.83.0-2.1ubuntu3 [349 kB] Get:155 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-test1.83.0 armhf 1.83.0-2.1ubuntu3 [458 kB] Get:156 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-test1.83-dev armhf 1.83.0-2.1ubuntu3 [574 kB] Get:157 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-graph1.83-dev armhf 1.83.0-2.1ubuntu3 [397 kB] Get:158 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-graph-dev armhf 1.83.0.1ubuntu2 [4160 B] Get:159 http://ftpmaster.internal/ubuntu oracular/main armhf libevent-core-2.1-7t64 armhf 2.1.12-stable-9ubuntu2 [82.6 kB] Get:160 http://ftpmaster.internal/ubuntu oracular/main armhf libevent-pthreads-2.1-7t64 armhf 2.1.12-stable-9ubuntu2 [7540 B] Get:161 http://ftpmaster.internal/ubuntu oracular/main armhf librdmacm1t64 armhf 50.0-2build2 [63.0 kB] Get:162 http://ftpmaster.internal/ubuntu oracular/universe armhf libfabric1 armhf 1.17.0-3build2 [419 kB] Get:163 http://ftpmaster.internal/ubuntu oracular/universe armhf libhwloc15 armhf 2.10.0-1build1 [146 kB] Get:164 http://ftpmaster.internal/ubuntu oracular/universe armhf libmunge2 armhf 0.5.15-4build1 [17.1 kB] Get:165 http://ftpmaster.internal/ubuntu oracular/main armhf libpciaccess0 armhf 0.17-3build1 [16.3 kB] Get:166 http://ftpmaster.internal/ubuntu oracular/main armhf libxnvctrl0 armhf 510.47.03-0ubuntu4 [11.6 kB] Get:167 http://ftpmaster.internal/ubuntu oracular/universe armhf ocl-icd-libopencl1 armhf 2.3.2-1build1 [34.5 kB] Get:168 http://ftpmaster.internal/ubuntu oracular/universe armhf libhwloc-plugins armhf 2.10.0-1build1 [13.7 kB] Get:169 http://ftpmaster.internal/ubuntu oracular/universe armhf libpmix2t64 armhf 5.0.1-4.1build1 [616 kB] Get:170 http://ftpmaster.internal/ubuntu oracular/universe armhf libopenmpi3t64 armhf 4.1.6-7ubuntu2 [2041 kB] Get:171 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-mpi1.83.0 armhf 1.83.0-2.1ubuntu3 [268 kB] Get:172 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-graph-parallel1.83.0 armhf 1.83.0-2.1ubuntu3 [275 kB] Get:173 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-graph-parallel1.83-dev armhf 1.83.0-2.1ubuntu3 [289 kB] Get:174 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-graph-parallel-dev armhf 1.83.0.1ubuntu2 [4192 B] Get:175 http://ftpmaster.internal/ubuntu oracular/main armhf libboost-iostreams1.83.0 armhf 1.83.0-2.1ubuntu3 [257 kB] Get:176 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-iostreams1.83-dev armhf 1.83.0-2.1ubuntu3 [265 kB] Get:177 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-iostreams-dev armhf 1.83.0.1ubuntu2 [4046 B] Get:178 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-json1.83.0 armhf 1.83.0-2.1ubuntu3 [365 kB] Get:179 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-json1.83-dev armhf 1.83.0-2.1ubuntu3 [386 kB] Get:180 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-json-dev armhf 1.83.0.1ubuntu2 [4172 B] Get:181 http://ftpmaster.internal/ubuntu oracular/main armhf libboost-locale1.83.0 armhf 1.83.0-2.1ubuntu3 [465 kB] Get:182 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-locale1.83-dev armhf 1.83.0-2.1ubuntu3 [605 kB] Get:183 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-locale-dev armhf 1.83.0.1ubuntu2 [4378 B] Get:184 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-log1.83.0 armhf 1.83.0-2.1ubuntu3 [676 kB] Get:185 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-log1.83-dev armhf 1.83.0-2.1ubuntu3 [939 kB] Get:186 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-log-dev armhf 1.83.0.1ubuntu2 [4260 B] Get:187 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-math1.83.0 armhf 1.83.0-2.1ubuntu3 [346 kB] Get:188 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-math1.83-dev armhf 1.83.0-2.1ubuntu3 [360 kB] Get:189 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-math-dev armhf 1.83.0.1ubuntu2 [4264 B] Get:190 http://ftpmaster.internal/ubuntu oracular/universe armhf openmpi-common all 4.1.6-7ubuntu2 [170 kB] Get:191 http://ftpmaster.internal/ubuntu oracular/main armhf libnl-3-dev armhf 3.7.0-0.3build1 [94.5 kB] Get:192 http://ftpmaster.internal/ubuntu oracular/main armhf libnl-route-3-dev armhf 3.7.0-0.3build1 [196 kB] Get:193 http://ftpmaster.internal/ubuntu oracular/main armhf libibverbs-dev armhf 50.0-2build2 [201 kB] Get:194 http://ftpmaster.internal/ubuntu oracular/main armhf libnuma-dev armhf 2.0.18-1build1 [35.0 kB] Get:195 http://ftpmaster.internal/ubuntu oracular/main armhf libltdl7 armhf 2.4.7-7build1 [37.6 kB] Get:196 http://ftpmaster.internal/ubuntu oracular/main armhf libltdl-dev armhf 2.4.7-7build1 [166 kB] Get:197 http://ftpmaster.internal/ubuntu oracular/universe armhf libhwloc-dev armhf 2.10.0-1build1 [242 kB] Get:198 http://ftpmaster.internal/ubuntu oracular/main armhf libevent-2.1-7t64 armhf 2.1.12-stable-9ubuntu2 [127 kB] Get:199 http://ftpmaster.internal/ubuntu oracular/main armhf libevent-extra-2.1-7t64 armhf 2.1.12-stable-9ubuntu2 [56.1 kB] Get:200 http://ftpmaster.internal/ubuntu oracular/main armhf libevent-openssl-2.1-7t64 armhf 2.1.12-stable-9ubuntu2 [13.0 kB] Get:201 http://ftpmaster.internal/ubuntu oracular/main armhf libevent-dev armhf 2.1.12-stable-9ubuntu2 [264 kB] Get:202 http://ftpmaster.internal/ubuntu oracular/main armhf zlib1g-dev armhf 1:1.3.dfsg-3.1ubuntu2 [880 kB] Get:203 http://ftpmaster.internal/ubuntu oracular/universe armhf libpmix-dev armhf 5.0.1-4.1build1 [3936 kB] Get:204 http://ftpmaster.internal/ubuntu oracular/main armhf libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] Get:205 http://ftpmaster.internal/ubuntu oracular/universe armhf libjs-jquery-ui all 1.13.2+dfsg-1 [252 kB] Get:206 http://ftpmaster.internal/ubuntu oracular/universe armhf openmpi-bin armhf 4.1.6-7ubuntu2 [83.2 kB] Get:207 http://ftpmaster.internal/ubuntu oracular/universe armhf libopenmpi-dev armhf 4.1.6-7ubuntu2 [816 kB] Get:208 http://ftpmaster.internal/ubuntu oracular/universe armhf mpi-default-dev armhf 1.15build1 [3154 B] Get:209 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-mpi1.83-dev armhf 1.83.0-2.1ubuntu3 [298 kB] Get:210 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-mpi-dev armhf 1.83.0.1ubuntu2 [4144 B] Get:211 http://ftpmaster.internal/ubuntu oracular/main armhf libboost-python1.83.0 armhf 1.83.0-2.1ubuntu3 [307 kB] Get:212 http://ftpmaster.internal/ubuntu oracular/universe armhf mpi-default-bin armhf 1.15build1 [2376 B] Get:213 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-mpi-python1.83.0 armhf 1.83.0-2.1ubuntu3 [352 kB] Get:214 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-mpi-python1.83-dev armhf 1.83.0-2.1ubuntu3 [237 kB] Get:215 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-mpi-python-dev armhf 1.83.0.1ubuntu2 [4196 B] Get:216 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-numpy1.83.0 armhf 1.83.0-2.1ubuntu3 [241 kB] Get:217 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-numpy1.83-dev armhf 1.83.0-2.1ubuntu3 [246 kB] Get:218 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-numpy-dev armhf 1.83.0.1ubuntu2 [4098 B] Get:219 http://ftpmaster.internal/ubuntu oracular/main armhf libboost-program-options1.83.0 armhf 1.83.0-2.1ubuntu3 [344 kB] Get:220 http://ftpmaster.internal/ubuntu oracular/main armhf libboost-program-options1.83-dev armhf 1.83.0-2.1ubuntu3 [389 kB] Get:221 http://ftpmaster.internal/ubuntu oracular/main armhf libboost-program-options-dev armhf 1.83.0.1ubuntu2 [4084 B] Get:222 http://ftpmaster.internal/ubuntu oracular/main armhf libpython3.12t64 armhf 3.12.3-1 [2058 kB] Get:223 http://ftpmaster.internal/ubuntu oracular/main armhf libexpat1-dev armhf 2.6.1-2build1 [122 kB] Get:224 http://ftpmaster.internal/ubuntu oracular/main armhf libpython3.12-dev armhf 3.12.3-1 [4314 kB] Get:225 http://ftpmaster.internal/ubuntu oracular/main armhf libpython3-dev armhf 3.12.3-0ubuntu1 [10.2 kB] Get:226 http://ftpmaster.internal/ubuntu oracular/main armhf python3.12-dev armhf 3.12.3-1 [498 kB] Get:227 http://ftpmaster.internal/ubuntu oracular/main armhf libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB] Get:228 http://ftpmaster.internal/ubuntu oracular/main armhf libjs-sphinxdoc all 7.2.6-6 [149 kB] Get:229 http://ftpmaster.internal/ubuntu oracular/main armhf python3-dev armhf 3.12.3-0ubuntu1 [26.7 kB] Get:230 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-python1.83-dev armhf 1.83.0-2.1ubuntu3 [334 kB] Get:231 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-python-dev armhf 1.83.0.1ubuntu2 [4344 B] Get:232 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-random1.83.0 armhf 1.83.0-2.1ubuntu3 [243 kB] Get:233 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-random1.83-dev armhf 1.83.0-2.1ubuntu3 [240 kB] Get:234 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-random-dev armhf 1.83.0.1ubuntu2 [4062 B] Get:235 http://ftpmaster.internal/ubuntu oracular/main armhf libboost-regex-dev armhf 1.83.0.1ubuntu2 [4324 B] Get:236 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-serialization-dev armhf 1.83.0.1ubuntu2 [4280 B] Get:237 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-stacktrace1.83.0 armhf 1.83.0-2.1ubuntu3 [280 kB] Get:238 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-stacktrace1.83-dev armhf 1.83.0-2.1ubuntu3 [245 kB] Get:239 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-stacktrace-dev armhf 1.83.0.1ubuntu2 [4066 B] Get:240 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-system-dev armhf 1.83.0.1ubuntu2 [4204 B] Get:241 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-test-dev armhf 1.83.0.1ubuntu2 [4090 B] Get:242 http://ftpmaster.internal/ubuntu oracular/main armhf libboost-thread-dev armhf 1.83.0.1ubuntu2 [4088 B] Get:243 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-timer1.83.0 armhf 1.83.0-2.1ubuntu3 [240 kB] Get:244 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-timer1.83-dev armhf 1.83.0-2.1ubuntu3 [237 kB] Get:245 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-timer-dev armhf 1.83.0.1ubuntu2 [4190 B] Get:246 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-type-erasure1.83.0 armhf 1.83.0-2.1ubuntu3 [244 kB] Get:247 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-type-erasure1.83-dev armhf 1.83.0-2.1ubuntu3 [251 kB] Get:248 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-type-erasure-dev armhf 1.83.0.1ubuntu2 [4162 B] Get:249 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-url1.83.0 armhf 1.83.0-2.1ubuntu3 [334 kB] Get:250 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-url1.83-dev armhf 1.83.0-2.1ubuntu3 [404 kB] Get:251 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-url-dev armhf 1.83.0.1ubuntu2 [4192 B] Get:252 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-wave1.83.0 armhf 1.83.0-2.1ubuntu3 [433 kB] Get:253 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-wave1.83-dev armhf 1.83.0-2.1ubuntu3 [518 kB] Get:254 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-wave-dev armhf 1.83.0.1ubuntu2 [4096 B] Get:255 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-nowide1.83.0 armhf 1.83.0-2.1ubuntu3 [240 kB] Get:256 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-nowide1.83-dev armhf 1.83.0-2.1ubuntu3 [235 kB] Get:257 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-nowide-dev armhf 1.83.0.1ubuntu2 [4136 B] Get:258 http://ftpmaster.internal/ubuntu oracular/universe armhf libboost-all-dev armhf 1.83.0.1ubuntu2 [2286 B] Get:259 http://ftpmaster.internal/ubuntu oracular/main armhf libcups2t64 armhf 2.4.7-1.2ubuntu7 [240 kB] Get:260 http://ftpmaster.internal/ubuntu oracular/main armhf libdeflate0 armhf 1.20-1 [38.3 kB] Get:261 http://ftpmaster.internal/ubuntu oracular/main armhf libdeflate-dev armhf 1.20-1 [44.6 kB] Get:262 http://ftpmaster.internal/ubuntu oracular/universe armhf libdouble-conversion3 armhf 3.3.0-1build1 [38.6 kB] Get:263 http://ftpmaster.internal/ubuntu oracular/main armhf libdrm-amdgpu1 armhf 2.4.120-2build1 [18.6 kB] Get:264 http://ftpmaster.internal/ubuntu oracular/main armhf libdrm-nouveau2 armhf 2.4.120-2build1 [15.2 kB] Get:265 http://ftpmaster.internal/ubuntu oracular/main armhf libdrm-radeon1 armhf 2.4.120-2build1 [18.2 kB] Get:266 http://ftpmaster.internal/ubuntu oracular/main armhf libglvnd0 armhf 1.7.0-1build1 [83.7 kB] Get:267 http://ftpmaster.internal/ubuntu oracular/main armhf libwayland-server0 armhf 1.22.0-2.1build1 [29.3 kB] Get:268 http://ftpmaster.internal/ubuntu oracular/main armhf libxcb-randr0 armhf 1.15-1ubuntu2 [17.0 kB] Get:269 http://ftpmaster.internal/ubuntu oracular/main armhf libgbm1 armhf 24.0.5-1ubuntu1 [38.9 kB] Get:270 http://ftpmaster.internal/ubuntu oracular/main armhf libglapi-mesa armhf 24.0.5-1ubuntu1 [48.3 kB] Get:271 http://ftpmaster.internal/ubuntu oracular/main armhf libwayland-client0 armhf 1.22.0-2.1build1 [22.0 kB] Get:272 http://ftpmaster.internal/ubuntu oracular/main armhf libx11-xcb1 armhf 2:1.8.7-1build1 [7748 B] Get:273 http://ftpmaster.internal/ubuntu oracular/main armhf libxcb-dri2-0 armhf 1.15-1ubuntu2 [6878 B] Get:274 http://ftpmaster.internal/ubuntu oracular/main armhf libxcb-dri3-0 armhf 1.15-1ubuntu2 [6730 B] Get:275 http://ftpmaster.internal/ubuntu oracular/main armhf libxcb-present0 armhf 1.15-1ubuntu2 [5538 B] Get:276 http://ftpmaster.internal/ubuntu oracular/main armhf libxcb-sync1 armhf 1.15-1ubuntu2 [8738 B] Get:277 http://ftpmaster.internal/ubuntu oracular/main armhf libxcb-xfixes0 armhf 1.15-1ubuntu2 [10.0 kB] Get:278 http://ftpmaster.internal/ubuntu oracular/main armhf libxshmfence1 armhf 1.3-1build5 [4464 B] Get:279 http://ftpmaster.internal/ubuntu oracular/main armhf libegl-mesa0 armhf 24.0.5-1ubuntu1 [95.2 kB] Get:280 http://ftpmaster.internal/ubuntu oracular/main armhf libegl1 armhf 1.7.0-1build1 [29.8 kB] Get:281 http://ftpmaster.internal/ubuntu oracular/main armhf libxcb-glx0 armhf 1.15-1ubuntu2 [22.6 kB] Get:282 http://ftpmaster.internal/ubuntu oracular/main armhf libxcb-shm0 armhf 1.15-1ubuntu2 [5772 B] Get:283 http://ftpmaster.internal/ubuntu oracular/main armhf libxfixes3 armhf 1:6.0.0-2build1 [9038 B] Get:284 http://ftpmaster.internal/ubuntu oracular/main armhf libxxf86vm1 armhf 1:1.1.4-1build4 [8068 B] Get:285 http://ftpmaster.internal/ubuntu oracular/main armhf libvulkan1 armhf 1.3.280.0-1 [121 kB] Get:286 http://ftpmaster.internal/ubuntu oracular/main armhf libllvm17t64 armhf 1:17.0.6-9ubuntu1 [25.3 MB] Get:287 http://ftpmaster.internal/ubuntu oracular/main armhf libgl1-mesa-dri armhf 24.0.5-1ubuntu1 [7198 kB] Get:288 http://ftpmaster.internal/ubuntu oracular/main armhf libglx-mesa0 armhf 24.0.5-1ubuntu1 [132 kB] Get:289 http://ftpmaster.internal/ubuntu oracular/main armhf libglx0 armhf 1.7.0-1build1 [39.3 kB] Get:290 http://ftpmaster.internal/ubuntu oracular/main armhf libgl1 armhf 1.7.0-1build1 [105 kB] Get:291 http://ftpmaster.internal/ubuntu oracular/main armhf xorg-sgml-doctools all 1:1.11-1.1 [10.9 kB] Get:292 http://ftpmaster.internal/ubuntu oracular/main armhf x11proto-dev all 2024.1-1 [606 kB] Get:293 http://ftpmaster.internal/ubuntu oracular/main armhf libxau-dev armhf 1:1.0.9-1build6 [8964 B] Get:294 http://ftpmaster.internal/ubuntu oracular/main armhf libxdmcp-dev armhf 1:1.1.3-0ubuntu6 [24.9 kB] Get:295 http://ftpmaster.internal/ubuntu oracular/main armhf xtrans-dev all 1.4.0-1 [68.9 kB] Get:296 http://ftpmaster.internal/ubuntu oracular/main armhf libpthread-stubs0-dev armhf 0.4-1build3 [4744 B] Get:297 http://ftpmaster.internal/ubuntu oracular/main armhf libxcb1-dev armhf 1.15-1ubuntu2 [84.6 kB] Get:298 http://ftpmaster.internal/ubuntu oracular/main armhf libx11-dev armhf 2:1.8.7-1build1 [671 kB] Get:299 http://ftpmaster.internal/ubuntu oracular/main armhf libglx-dev armhf 1.7.0-1build1 [14.2 kB] Get:300 http://ftpmaster.internal/ubuntu oracular/main armhf libgl-dev armhf 1.7.0-1build1 [102 kB] Get:301 http://ftpmaster.internal/ubuntu oracular/main armhf libegl-dev armhf 1.7.0-1build1 [18.2 kB] Get:302 http://ftpmaster.internal/ubuntu oracular/main armhf libfftw3-double3 armhf 3.3.10-1ubuntu3 [369 kB] Get:303 http://ftpmaster.internal/ubuntu oracular/main armhf libfftw3-single3 armhf 3.3.10-1ubuntu3 [376 kB] Get:304 http://ftpmaster.internal/ubuntu oracular/main armhf libfftw3-bin armhf 3.3.10-1ubuntu3 [30.0 kB] Get:305 http://ftpmaster.internal/ubuntu oracular/main armhf libfftw3-dev armhf 3.3.10-1ubuntu3 [707 kB] Get:306 http://ftpmaster.internal/ubuntu oracular/main armhf libgles1 armhf 1.7.0-1build1 [11.6 kB] Get:307 http://ftpmaster.internal/ubuntu oracular/main armhf libgles2 armhf 1.7.0-1build1 [18.0 kB] Get:308 http://ftpmaster.internal/ubuntu oracular/main armhf libgles-dev armhf 1.7.0-1build1 [50.5 kB] Get:309 http://ftpmaster.internal/ubuntu oracular/main armhf libopengl0 armhf 1.7.0-1build1 [36.2 kB] Get:310 http://ftpmaster.internal/ubuntu oracular/main armhf libglu1-mesa armhf 9.0.2-1.1build1 [153 kB] Get:311 http://ftpmaster.internal/ubuntu oracular/main armhf libopengl-dev armhf 1.7.0-1build1 [3448 B] Get:312 http://ftpmaster.internal/ubuntu oracular/main armhf libglu1-mesa-dev armhf 9.0.2-1.1build1 [197 kB] Get:313 http://ftpmaster.internal/ubuntu oracular/main armhf libgraphite2-3 armhf 1.3.14-2build1 [64.6 kB] Get:314 http://ftpmaster.internal/ubuntu oracular/main armhf libgudev-1.0-0 armhf 1:238-5ubuntu1 [13.8 kB] Get:315 http://ftpmaster.internal/ubuntu oracular/main armhf libharfbuzz0b armhf 8.3.0-2build2 [446 kB] Get:316 http://ftpmaster.internal/ubuntu oracular/main armhf libice6 armhf 2:1.0.10-1build3 [35.4 kB] Get:317 http://ftpmaster.internal/ubuntu oracular/main armhf libimagequant0 armhf 2.18.0-1build1 [31.1 kB] Get:318 http://ftpmaster.internal/ubuntu oracular/main armhf libwacom-common all 2.10.0-2 [63.4 kB] Get:319 http://ftpmaster.internal/ubuntu oracular/main armhf libwacom9 armhf 2.10.0-2 [20.9 kB] Get:320 http://ftpmaster.internal/ubuntu oracular/main armhf libinput-bin armhf 1.25.0-1ubuntu2 [24.5 kB] Get:321 http://ftpmaster.internal/ubuntu oracular/main armhf libmtdev1t64 armhf 1.1.6-1.2 [13.2 kB] Get:322 http://ftpmaster.internal/ubuntu oracular/main armhf libinput10 armhf 1.25.0-1ubuntu2 [117 kB] Get:323 http://ftpmaster.internal/ubuntu oracular/main armhf libjpeg-turbo8 armhf 2.1.5-2ubuntu2 [125 kB] Get:324 http://ftpmaster.internal/ubuntu oracular/main armhf libjpeg-turbo8-dev armhf 2.1.5-2ubuntu2 [262 kB] Get:325 http://ftpmaster.internal/ubuntu oracular/main armhf libjpeg8 armhf 8c-2ubuntu11 [2148 B] Get:326 http://ftpmaster.internal/ubuntu oracular/main armhf libjpeg8-dev armhf 8c-2ubuntu11 [1484 B] Get:327 http://ftpmaster.internal/ubuntu oracular/main armhf libjpeg-dev armhf 8c-2ubuntu11 [1482 B] Get:328 http://ftpmaster.internal/ubuntu oracular/main armhf liblapack3 armhf 3.12.0-3build1 [2085 kB] Get:329 http://ftpmaster.internal/ubuntu oracular/universe armhf liblbfgsb0 armhf 3.0+dfsg.4-1build1 [27.4 kB] Get:330 http://ftpmaster.internal/ubuntu oracular/main armhf liblcms2-2 armhf 2.14-2build1 [132 kB] Get:331 http://ftpmaster.internal/ubuntu oracular/main armhf liblerc4 armhf 4.0.0+ds-4ubuntu2 [151 kB] Get:332 http://ftpmaster.internal/ubuntu oracular/main armhf liblerc-dev armhf 4.0.0+ds-4ubuntu2 [168 kB] Get:333 http://ftpmaster.internal/ubuntu oracular/universe armhf libmd4c0 armhf 0.4.8-1build1 [36.7 kB] Get:334 http://ftpmaster.internal/ubuntu oracular/main armhf libpcre2-16-0 armhf 10.42-4ubuntu2 [180 kB] Get:335 http://ftpmaster.internal/ubuntu oracular/main armhf libpkgconf3 armhf 1.8.1-2build1 [26.3 kB] Get:336 http://ftpmaster.internal/ubuntu oracular/main armhf libpng-dev armhf 1.6.43-5build1 [248 kB] Get:337 http://ftpmaster.internal/ubuntu oracular/universe armhf libqhull-r8.0 armhf 2020.2-6build1 [173 kB] Get:338 http://ftpmaster.internal/ubuntu oracular/universe armhf libqt5core5t64 armhf 5.15.13+dfsg-1ubuntu1 [1752 kB] Get:339 http://ftpmaster.internal/ubuntu oracular/universe armhf libqt5concurrent5t64 armhf 5.15.13+dfsg-1ubuntu1 [34.2 kB] Get:340 http://ftpmaster.internal/ubuntu oracular/universe armhf libqt5dbus5t64 armhf 5.15.13+dfsg-1ubuntu1 [196 kB] Get:341 http://ftpmaster.internal/ubuntu oracular/universe armhf libqt5network5t64 armhf 5.15.13+dfsg-1ubuntu1 [649 kB] Get:342 http://ftpmaster.internal/ubuntu oracular/main armhf libsm6 armhf 2:1.2.3-1build3 [14.1 kB] Get:343 http://ftpmaster.internal/ubuntu oracular/main armhf libxcb-icccm4 armhf 0.4.1-1.1build3 [9450 B] Get:344 http://ftpmaster.internal/ubuntu oracular/main armhf libxcb-util1 armhf 0.4.0-1build3 [9224 B] Get:345 http://ftpmaster.internal/ubuntu oracular/main armhf libxcb-image0 armhf 0.4.0-2build1 [9680 B] Get:346 http://ftpmaster.internal/ubuntu oracular/main armhf libxcb-keysyms1 armhf 0.4.0-1build4 [7260 B] Get:347 http://ftpmaster.internal/ubuntu oracular/main armhf libxcb-render0 armhf 1.15-1ubuntu2 [15.3 kB] Get:348 http://ftpmaster.internal/ubuntu oracular/main armhf libxcb-render-util0 armhf 0.3.9-1build4 [8648 B] Get:349 http://ftpmaster.internal/ubuntu oracular/main armhf libxcb-shape0 armhf 1.15-1ubuntu2 [6034 B] Get:350 http://ftpmaster.internal/ubuntu oracular/main armhf libxcb-xinerama0 armhf 1.15-1ubuntu2 [5208 B] Get:351 http://ftpmaster.internal/ubuntu oracular/main armhf libxcb-xinput0 armhf 1.15-1ubuntu2 [29.5 kB] Get:352 http://ftpmaster.internal/ubuntu oracular/main armhf libxcb-xkb1 armhf 1.15-1ubuntu2 [28.8 kB] Get:353 http://ftpmaster.internal/ubuntu oracular/main armhf libxkbcommon-x11-0 armhf 1.6.0-1build1 [13.8 kB] Get:354 http://ftpmaster.internal/ubuntu oracular/universe armhf libqt5gui5t64 armhf 5.15.13+dfsg-1ubuntu1 [2935 kB] Get:355 http://ftpmaster.internal/ubuntu oracular/universe armhf libqt5widgets5t64 armhf 5.15.13+dfsg-1ubuntu1 [2247 kB] Get:356 http://ftpmaster.internal/ubuntu oracular/universe armhf libqt5xml5t64 armhf 5.15.13+dfsg-1ubuntu1 [108 kB] Get:357 http://ftpmaster.internal/ubuntu oracular/universe armhf libqt5designer5 armhf 5.15.13-1 [2718 kB] Get:358 http://ftpmaster.internal/ubuntu oracular/universe armhf libqt5sql5t64 armhf 5.15.13+dfsg-1ubuntu1 [107 kB] Get:359 http://ftpmaster.internal/ubuntu oracular/universe armhf libqt5help5 armhf 5.15.13-1 [142 kB] Get:360 http://ftpmaster.internal/ubuntu oracular/universe armhf libqt5opengl5t64 armhf 5.15.13+dfsg-1ubuntu1 [126 kB] Get:361 http://ftpmaster.internal/ubuntu oracular/universe armhf libqt5printsupport5t64 armhf 5.15.13+dfsg-1ubuntu1 [190 kB] Get:362 http://ftpmaster.internal/ubuntu oracular/universe armhf libqt5test5t64 armhf 5.15.13+dfsg-1ubuntu1 [134 kB] Get:363 http://ftpmaster.internal/ubuntu oracular/main armhf libvulkan-dev armhf 1.3.280.0-1 [1274 kB] Get:364 http://ftpmaster.internal/ubuntu oracular/main armhf libxext-dev armhf 2:1.3.4-1build2 [79.4 kB] Get:365 http://ftpmaster.internal/ubuntu oracular/universe armhf qt5-qmake-bin armhf 5.15.13+dfsg-1ubuntu1 [1033 kB] Get:366 http://ftpmaster.internal/ubuntu oracular/universe armhf qtchooser armhf 66-2build2 [25.4 kB] Get:367 http://ftpmaster.internal/ubuntu oracular/universe armhf qt5-qmake armhf 5.15.13+dfsg-1ubuntu1 [209 kB] Get:368 http://ftpmaster.internal/ubuntu oracular/universe armhf qtbase5-dev-tools armhf 5.15.13+dfsg-1ubuntu1 [726 kB] Get:369 http://ftpmaster.internal/ubuntu oracular/universe armhf qtbase5-dev armhf 5.15.13+dfsg-1ubuntu1 [1062 kB] Get:370 http://ftpmaster.internal/ubuntu oracular/universe armhf libqt5opengl5-dev armhf 5.15.13+dfsg-1ubuntu1 [42.3 kB] Get:371 http://ftpmaster.internal/ubuntu oracular/main armhf libraqm0 armhf 0.10.1-1build1 [12.4 kB] Get:372 http://ftpmaster.internal/ubuntu oracular/main armhf libsharpyuv0 armhf 1.3.2-0.4build3 [13.6 kB] Get:373 http://ftpmaster.internal/ubuntu oracular/main armhf libsharpyuv-dev armhf 1.3.2-0.4build3 [13.1 kB] Get:374 http://ftpmaster.internal/ubuntu oracular/main armhf libsqlite3-dev armhf 3.45.1-1ubuntu2 [816 kB] Get:375 http://ftpmaster.internal/ubuntu oracular/main armhf libjbig0 armhf 2.1-6.1ubuntu2 [24.9 kB] Get:376 http://ftpmaster.internal/ubuntu oracular/main armhf libjbig-dev armhf 2.1-6.1ubuntu2 [24.4 kB] Get:377 http://ftpmaster.internal/ubuntu oracular/main armhf liblzma-dev armhf 5.6.1+really5.4.5-1 [165 kB] Get:378 http://ftpmaster.internal/ubuntu oracular/main armhf libzstd-dev armhf 1.5.5+dfsg2-2build1 [329 kB] Get:379 http://ftpmaster.internal/ubuntu oracular/main armhf libwebp7 armhf 1.3.2-0.4build3 [183 kB] Get:380 http://ftpmaster.internal/ubuntu oracular/main armhf libwebpdemux2 armhf 1.3.2-0.4build3 [11.8 kB] Get:381 http://ftpmaster.internal/ubuntu oracular/main armhf libwebpmux3 armhf 1.3.2-0.4build3 [22.4 kB] Get:382 http://ftpmaster.internal/ubuntu oracular/main armhf libwebpdecoder3 armhf 1.3.2-0.4build3 [92.0 kB] Get:383 http://ftpmaster.internal/ubuntu oracular/main armhf libwebp-dev armhf 1.3.2-0.4build3 [311 kB] Get:384 http://ftpmaster.internal/ubuntu oracular/main armhf libtiff6 armhf 4.5.1+git230720-4ubuntu2 [178 kB] Get:385 http://ftpmaster.internal/ubuntu oracular/main armhf libtiffxx6 armhf 4.5.1+git230720-4ubuntu2 [5616 B] Get:386 http://ftpmaster.internal/ubuntu oracular/main armhf libtiff-dev armhf 4.5.1+git230720-4ubuntu2 [320 kB] Get:387 http://ftpmaster.internal/ubuntu oracular/main armhf libxslt1.1 armhf 1.1.39-0exp1build1 [150 kB] Get:388 http://ftpmaster.internal/ubuntu oracular/main armhf pkgconf-bin armhf 1.8.1-2build1 [20.7 kB] Get:389 http://ftpmaster.internal/ubuntu oracular/main armhf pkgconf armhf 1.8.1-2build1 [16.8 kB] Get:390 http://ftpmaster.internal/ubuntu oracular/main armhf pkg-config armhf 1.8.1-2build1 [7264 B] Get:391 http://ftpmaster.internal/ubuntu oracular/universe armhf python-matplotlib-data all 3.6.3-1ubuntu5 [2936 kB] Get:392 http://ftpmaster.internal/ubuntu oracular/main armhf python3-appdirs all 1.4.4-4 [10.9 kB] Get:393 http://ftpmaster.internal/ubuntu oracular/main armhf python3-attr all 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http://ftpmaster.internal/ubuntu oracular/universe armhf python3-mpmath all 1.3.0-1 [425 kB] Get:404 http://ftpmaster.internal/ubuntu oracular/universe armhf python3-sympy all 1.12-7 [3966 kB] Get:405 http://ftpmaster.internal/ubuntu oracular/main armhf python3-tz all 2024.1-2 [31.4 kB] Get:406 http://ftpmaster.internal/ubuntu oracular/universe armhf python3-fs all 2.4.16-4 [91.3 kB] Get:407 http://ftpmaster.internal/ubuntu oracular/main armhf python3-lxml armhf 5.2.1-1 [1200 kB] Get:408 http://ftpmaster.internal/ubuntu oracular/universe armhf python3-lz4 armhf 4.0.2+dfsg-1build4 [24.8 kB] Get:409 http://ftpmaster.internal/ubuntu oracular/universe armhf python3-unicodedata2 armhf 15.1.0+ds-1build1 [361 kB] Get:410 http://ftpmaster.internal/ubuntu oracular/universe armhf unicode-data all 15.1.0-1 [8878 kB] Get:411 http://ftpmaster.internal/ubuntu oracular/universe armhf python3-fonttools armhf 4.46.0-1build2 [1402 kB] Get:412 http://ftpmaster.internal/ubuntu oracular/universe armhf python3-kiwisolver armhf 1.4.5-1 [56.3 kB] Get:413 http://ftpmaster.internal/ubuntu oracular/main armhf libopenjp2-7 armhf 2.5.0-2build3 [160 kB] Get:414 http://ftpmaster.internal/ubuntu oracular/main armhf python3-pil armhf 10.2.0-1build1 [417 kB] Get:415 http://ftpmaster.internal/ubuntu oracular/main armhf python3-tk armhf 3.12.3-0ubuntu1 [99.2 kB] Get:416 http://ftpmaster.internal/ubuntu oracular/universe armhf python3-pil.imagetk armhf 10.2.0-1build1 [8666 B] Get:417 http://ftpmaster.internal/ubuntu oracular/main armhf python3-pyparsing all 3.1.1-1 [86.2 kB] Get:418 http://ftpmaster.internal/ubuntu oracular/main armhf python3-packaging all 24.0-1 [41.1 kB] Get:419 http://ftpmaster.internal/ubuntu oracular/universe armhf python3-matplotlib armhf 3.6.3-1ubuntu5 [5963 kB] Get:420 http://ftpmaster.internal/ubuntu oracular/universe armhf python3-pyqt5.sip armhf 12.13.0-1build3 [51.5 kB] Get:421 http://ftpmaster.internal/ubuntu oracular/universe armhf python3-pyqt5 armhf 5.15.10+dfsg-1build6 [2210 kB] Get:422 http://ftpmaster.internal/ubuntu oracular/universe armhf sip-dev armhf 4.19.25+dfsg-5build3 [172 kB] Get:423 http://ftpmaster.internal/ubuntu oracular/universe armhf libeigen3-dev all 3.4.0-4 [1056 kB] Get:424 http://ftpmaster.internal/ubuntu oracular/universe armhf voronota armhf 1.22.3149-2 [2127 kB] Preconfiguring packages ... Fetched 231 MB in 30s (7657 kB/s) Selecting previously unselected package libpython3.12-minimal:armhf. (Reading database ... 15019 files and directories currently installed.) Preparing to unpack .../libpython3.12-minimal_3.12.3-1_armhf.deb ... Unpacking libpython3.12-minimal:armhf (3.12.3-1) ... Selecting previously unselected package libexpat1:armhf. Preparing to unpack .../libexpat1_2.6.1-2build1_armhf.deb ... Unpacking libexpat1:armhf (2.6.1-2build1) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../python3.12-minimal_3.12.3-1_armhf.deb ... Unpacking python3.12-minimal (3.12.3-1) ... Setting up libpython3.12-minimal:armhf (3.12.3-1) ... Setting up libexpat1:armhf (2.6.1-2build1) ... Setting up python3.12-minimal (3.12.3-1) ... Selecting previously unselected package python3-minimal. (Reading database ... 15337 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.12.3-0ubuntu1_armhf.deb ... 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Setting up libgudev-1.0-0:armhf (1:238-5ubuntu1) ... Setting up qtchooser (66-2build2) ... Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Setting up libwacom-common (2.10.0-2) ... Setting up libxkbcommon0:armhf (1.6.0-1build1) ... Setting up libwayland-client0:armhf (1.22.0-2.1build1) ... Setting up libjpeg8:armhf (8c-2ubuntu11) ... Setting up automake (1:1.16.5-1.3ubuntu1) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up x11proto-dev (2024.1-1) ... Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up gfortran-13-arm-linux-gnueabihf (13.2.0-23ubuntu4) ... Setting up libice6:armhf (2:1.0.10-1build3) ... Setting up libjpeg-turbo8-dev:armhf (2.1.5-2ubuntu2) ... Setting up libxdmcp6:armhf (1:1.1.3-0ubuntu6) ... Setting up liblapack3:armhf (3.12.0-3build1) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/lapack/liblapack.so.3 to provide /usr/lib/arm-linux-gnueabihf/liblapack.so.3 (liblapack.so.3-arm-linux-gnueabihf) in auto mode Setting up libboost-wave1.83.0:armhf (1.83.0-2.1ubuntu3) ... Setting up libxcb1:armhf (1.15-1ubuntu2) ... Setting up gettext (0.21-14ubuntu2) ... Setting up libboost-coroutine1.83.0:armhf (1.83.0-2.1ubuntu3) ... Setting up libxcb-xfixes0:armhf (1.15-1ubuntu2) ... Setting up libxau-dev:armhf (1:1.0.9-1build6) ... Setting up libboost-chrono1.83-dev:armhf (1.83.0-2.1ubuntu3) ... Setting up libpython3.12-stdlib:armhf (3.12.3-1) ... Setting up qt5-qmake:armhf (5.15.13+dfsg-1ubuntu1) ... Setting up libxcb-xinput0:armhf (1.15-1ubuntu2) ... Setting up libcurl4t64:armhf (8.5.0-2ubuntu10) ... Setting up libboost-math1.83-dev:armhf (1.83.0-2.1ubuntu3) ... Setting up libtool (2.4.7-7build1) ... Setting up libxcb-render0:armhf (1.15-1ubuntu2) ... Setting up libboost-chrono-dev:armhf (1.83.0.1ubuntu2) ... Setting up libfftw3-bin (3.3.10-1ubuntu3) ... Setting up libwacom9:armhf (2.10.0-2) ... Setting up libevent-pthreads-2.1-7t64:armhf (2.1.12-stable-9ubuntu2) ... Setting up libboost-log1.83.0 (1.83.0-2.1ubuntu3) ... Setting up fontconfig-config (2.15.0-1.1ubuntu2) ... Setting up libboost-math-dev:armhf (1.83.0.1ubuntu2) ... Setting up libxcb-glx0:armhf (1.15-1ubuntu2) ... Setting up libwebpdemux2:armhf (1.3.2-0.4build3) ... Setting up python3.12 (3.12.3-1) ... Setting up libedit2:armhf (3.1-20230828-1build1) ... Setting up libevent-openssl-2.1-7t64:armhf (2.1.12-stable-9ubuntu2) ... Setting up libboost-system-dev:armhf (1.83.0.1ubuntu2) ... Setting up libpng-dev:armhf (1.6.43-5build1) ... Setting up libxcb-keysyms1:armhf (0.4.0-1build4) ... Setting up libxcb-shape0:armhf (1.15-1ubuntu2) ... Setting up libavahi-common3:armhf (0.8-13ubuntu6) ... Setting up libboost-serialization1.83-dev:armhf (1.83.0-2.1ubuntu3) ... Setting up libjbig-dev:armhf (2.1-6.1ubuntu2) ... Setting up libboost-locale1.83.0:armhf (1.83.0-2.1ubuntu3) ... Setting up libboost-test1.83-dev:armhf (1.83.0-2.1ubuntu3) ... Setting up libboost-url1.83-dev:armhf (1.83.0-2.1ubuntu3) ... Setting up libxcb-render-util0:armhf (0.3.9-1build4) ... Setting up libboost-tools-dev (1.83.0.1ubuntu2) ... Setting up libxcb-shm0:armhf (1.15-1ubuntu2) ... Setting up libboost-filesystem1.83-dev:armhf (1.83.0-2.1ubuntu3) ... Setting up libxcb-icccm4:armhf (0.4.1-1.1build3) ... Setting up libboost-exception-dev:armhf (1.83.0.1ubuntu2) ... Setting up libboost-nowide-dev (1.83.0.1ubuntu2) ... Setting up libxcb-util1:armhf (0.4.0-1build3) ... Setting up pkgconf:armhf (1.8.1-2build1) ... Setting up libinput-bin (1.25.0-1ubuntu2) ... Setting up libxcb-xkb1:armhf (1.15-1ubuntu2) ... Setting up libxcb-image0:armhf (0.4.0-2build1) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up libnuma-dev:armhf (2.0.18-1build1) ... Setting up libnl-route-3-200:armhf (3.7.0-0.3build1) ... Setting up libboost-test-dev:armhf (1.83.0.1ubuntu2) ... Setting up libxcb-present0:armhf (1.15-1ubuntu2) ... Setting up libcifpp5:armhf (5.0.7.1-3build1) ... Setting up libpython3.12t64:armhf (3.12.3-1) ... Setting up dh-autoreconf (20) ... Setting up libltdl-dev:armhf (2.4.7-7build1) ... Setting up libxdmcp-dev:armhf (1:1.1.3-0ubuntu6) ... Setting up libwebp-dev:armhf (1.3.2-0.4build3) ... Setting up libxcb-xinerama0:armhf (1.15-1ubuntu2) ... Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... Setting up libboost-timer1.83-dev:armhf (1.83.0-2.1ubuntu3) ... Setting up libllvm17t64:armhf (1:17.0.6-9ubuntu1) ... Setting up libxcb-sync1:armhf (1.15-1ubuntu2) ... Setting up libboost-container1.83-dev:armhf (1.83.0-2.1ubuntu3) ... Setting up gfortran-13 (13.2.0-23ubuntu4) ... Setting up libboost-date-time1.83-dev:armhf (1.83.0-2.1ubuntu3) ... Setting up libraqm0:armhf (0.10.1-1build1) ... Setting up shared-mime-info (2.4-4) ... Setting up libboost-numpy-dev (1.83.0.1ubuntu2) ... Setting up libxkbcommon-x11-0:armhf (1.6.0-1build1) ... Setting up libeigen3-dev (3.4.0-4) ... Setting up icu-devtools (74.2-1ubuntu3) ... Setting up pkg-config:armhf (1.8.1-2build1) ... Setting up libboost-random1.83-dev:armhf (1.83.0-2.1ubuntu3) ... Setting up libboost-serialization-dev:armhf (1.83.0.1ubuntu2) ... Setting up libboost-date-time-dev:armhf (1.83.0.1ubuntu2) ... Setting up libjs-sphinxdoc (7.2.6-6) ... Setting up libevent-extra-2.1-7t64:armhf (2.1.12-stable-9ubuntu2) ... Setting up libxcb-dri2-0:armhf (1.15-1ubuntu2) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up libdrm2:armhf (2.4.120-2build1) ... Setting up libnl-3-dev:armhf (3.7.0-0.3build1) ... Setting up groff-base (1.23.0-3build2) ... Setting up libtiff6:armhf (4.5.1+git230720-4ubuntu2) ... Setting up libxcb-randr0:armhf (1.15-1ubuntu2) ... Setting up libxslt1.1:armhf (1.1.39-0exp1build1) ... Setting up libx11-6:armhf (2:1.8.7-1build1) ... Setting up libboost-url-dev:armhf (1.83.0.1ubuntu2) ... Setting up libhwloc-dev:armhf (2.10.0-1build1) ... Setting up libfontconfig1:armhf (2.15.0-1.1ubuntu2) ... Setting up libjpeg8-dev:armhf (8c-2ubuntu11) ... Setting up libtiffxx6:armhf (4.5.1+git230720-4ubuntu2) ... Setting up libsm6:armhf (2:1.2.3-1build3) ... Setting up libarchive13t64:armhf (3.7.2-2) ... Setting up libfftw3-dev:armhf (3.3.10-1ubuntu3) ... Setting up libicu-dev:armhf (74.2-1ubuntu3) ... Setting up libavahi-client3:armhf (0.8-13ubuntu6) ... Setting up libboost-timer-dev:armhf (1.83.0.1ubuntu2) ... Setting up libboost-filesystem-dev:armhf (1.83.0.1ubuntu2) ... Setting up libpython3-stdlib:armhf (3.12.3-0ubuntu1) ... Setting up liblbfgsb0:armhf (3.0+dfsg.4-1build1) ... Setting up libdrm-amdgpu1:armhf (2.4.120-2build1) ... Setting up libboost-thread1.83-dev:armhf (1.83.0-2.1ubuntu3) ... Setting up libxcb-dri3-0:armhf (1.15-1ubuntu2) ... Setting up libinput10:armhf (1.25.0-1ubuntu2) ... Setting up libx11-xcb1:armhf (2:1.8.7-1build1) ... Setting up libibverbs1:armhf (50.0-2build2) ... Setting up fontconfig (2.15.0-1.1ubuntu2) ... Regenerating fonts cache... done. Setting up libdrm-nouveau2:armhf (2.4.120-2build1) ... Setting up libboost-json1.83-dev:armhf (1.83.0-2.1ubuntu3) ... Setting up libxcb1-dev:armhf (1.15-1ubuntu2) ... Setting up libboost-wave1.83-dev:armhf (1.83.0-2.1ubuntu3) ... Setting up libboost-locale1.83-dev:armhf (1.83.0-2.1ubuntu3) ... Setting up libxrender1:armhf (1:0.9.10-1.1build1) ... Setting up libgbm1:armhf (24.0.5-1ubuntu1) ... Setting up ibverbs-providers:armhf (50.0-2build2) ... Setting up libdrm-radeon1:armhf (2.4.120-2build1) ... Setting up openssh-client (1:9.6p1-3ubuntu13) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libgl1-mesa-dri:armhf (24.0.5-1ubuntu1) ... Setting up libboost-type-erasure1.83-dev:armhf (1.83.0-2.1ubuntu3) ... Setting up libjpeg-dev:armhf (8c-2ubuntu11) ... Setting up libx11-dev:armhf (2:1.8.7-1build1) ... Setting up libxext6:armhf (2:1.3.4-1build2) ... Setting up libboost-random-dev:armhf (1.83.0.1ubuntu2) ... Setting up libboost-locale-dev:armhf (1.83.0.1ubuntu2) ... Setting up python3 (3.12.3-0ubuntu1) ... Setting up libpython3.12-dev:armhf (3.12.3-1) ... Setting up libboost-wave-dev:armhf (1.83.0.1ubuntu2) ... Setting up dssp (4.2.2-2) ... Setting up man-db (2.12.0-4build2) ... Not building database; man-db/auto-update is not 'true'. Created symlink /etc/systemd/system/timers.target.wants/man-db.timer → /usr/lib/systemd/system/man-db.timer. Setting up libboost-container-dev:armhf (1.83.0.1ubuntu2) ... Setting up python3-tz (2024.1-2) ... Setting up libboost-type-erasure-dev:armhf (1.83.0.1ubuntu2) ... Setting up libxxf86vm1:armhf (1:1.1.4-1build4) ... Setting up libboost-context1.83-dev:armhf (1.83.0-2.1ubuntu3) ... Setting up libxnvctrl0:armhf (510.47.03-0ubuntu4) ... Setting up python3-six (1.16.0-4) ... Setting up libnl-route-3-dev:armhf (3.7.0-0.3build1) ... Setting up libboost-coroutine1.83-dev:armhf (1.83.0-2.1ubuntu3) ... Setting up python3-pil:armhf (10.2.0-1build1) ... Setting up libqt5core5t64:armhf (5.15.13+dfsg-1ubuntu1) ... Setting up python3-decorator (5.1.1-5) ... Setting up libegl-mesa0:armhf (24.0.5-1ubuntu1) ... Setting up python3-packaging (24.0-1) ... Setting up python3-pyparsing (3.1.1-1) ... Setting up libtiff-dev:armhf (4.5.1+git230720-4ubuntu2) ... Setting up libboost-fiber1.83-dev:armhf (1.83.0-2.1ubuntu3) ... Setting up libxfixes3:armhf (1:6.0.0-2build1) ... Setting up python3-brotli (1.1.0-2build2) ... Setting up python3-cycler (0.12.1-1) ... Setting up libevent-dev (2.1.12-stable-9ubuntu2) ... Setting up python3-kiwisolver (1.4.5-1) ... Setting up python3.12-dev (3.12.3-1) ... Setting up libboost-regex1.83-dev:armhf (1.83.0-2.1ubuntu3) ... Setting up libxext-dev:armhf (2:1.3.4-1build2) ... Setting up python3-pyqt5.sip (12.13.0-1build3) ... Setting up python3-lxml:armhf (5.2.1-1) ... Setting up libegl1:armhf (1.7.0-1build1) ... Setting up libqt5sql5t64:armhf (5.15.13+dfsg-1ubuntu1) ... Setting up cmake (3.28.3-1build7) ... Setting up librdmacm1t64:armhf (50.0-2build2) ... Setting up python3-dateutil (2.8.2-3ubuntu1) ... Setting up libboost-coroutine-dev:armhf (1.83.0.1ubuntu2) ... Setting up libxss1:armhf (1:1.2.3-1build3) ... Setting up libboost-log1.83-dev (1.83.0-2.1ubuntu3) ... Setting up libboost-json-dev:armhf (1.83.0.1ubuntu2) ... Setting up python3-mpmath (1.3.0-1) ... Setting up libboost-regex-dev:armhf (1.83.0.1ubuntu2) ... Setting up python3-appdirs (1.4.4-4) ... Setting up libboost-log-dev (1.83.0.1ubuntu2) ... Setting up libcups2t64:armhf (2.4.7-1.2ubuntu7) ... Setting up libboost-thread-dev:armhf (1.83.0.1ubuntu2) ... Setting up libboost-fiber-dev:armhf (1.83.0.1ubuntu2) ... Setting up python3-pkg-resources (68.1.2-2ubuntu1) ... Setting up libfabric1:armhf (1.17.0-3build2) ... Setting up python3-sympy (1.12-7) ... Setting up python3-attr (23.2.0-2) ... Setting up libxft2:armhf (2.3.6-1build1) ... Setting up libvulkan-dev:armhf (1.3.280.0-1) ... Setting up libqt5dbus5t64:armhf (5.15.13+dfsg-1ubuntu1) ... Setting up libglx-mesa0:armhf (24.0.5-1ubuntu1) ... Setting up libpython3-dev:armhf (3.12.3-0ubuntu1) ... Setting up python3-setuptools (68.1.2-2ubuntu1) ... Setting up libglx0:armhf (1.7.0-1build1) ... Setting up python3-lz4 (4.0.2+dfsg-1build4) ... Setting up libboost-iostreams1.83-dev:armhf (1.83.0-2.1ubuntu3) ... Setting up python3-unicodedata2 (15.1.0+ds-1build1) ... Setting up libqt5concurrent5t64:armhf (5.15.13+dfsg-1ubuntu1) ... Setting up libtk8.6:armhf (8.6.14-1build1) ... Setting up libqt5network5t64:armhf (5.15.13+dfsg-1ubuntu1) ... Setting up libqt5xml5t64:armhf (5.15.13+dfsg-1ubuntu1) ... Setting up debhelper (13.14.1ubuntu5) ... Setting up libboost-context-dev:armhf (1.83.0.1ubuntu2) ... Setting up libboost-iostreams-dev:armhf (1.83.0.1ubuntu2) ... Setting up libqt5test5t64:armhf (5.15.13+dfsg-1ubuntu1) ... Setting up libibverbs-dev:armhf (50.0-2build2) ... Setting up libhwloc-plugins:armhf (2.10.0-1build1) ... Setting up libboost-graph1.83-dev:armhf (1.83.0-2.1ubuntu3) ... Setting up python3-fs (2.4.16-4) ... Setting up qtbase5-dev-tools (5.15.13+dfsg-1ubuntu1) ... Setting up libqt5gui5t64:armhf (5.15.13+dfsg-1ubuntu1) ... Setting up libgl1:armhf (1.7.0-1build1) ... Setting up python3-dev (3.12.3-0ubuntu1) ... Setting up libboost-python1.83-dev (1.83.0-2.1ubuntu3) ... Setting up libpmix2t64:armhf (5.0.1-4.1build1) ... Setting up python3-numpy (1:1.26.4+ds-6ubuntu1) ... Setting up libopenmpi3t64:armhf (4.1.6-7ubuntu2) ... Setting up libglx-dev:armhf (1.7.0-1build1) ... Setting up python3-contourpy (1.0.7-3) ... Setting up libboost-mpi1.83.0 (1.83.0-2.1ubuntu3) ... Setting up libgl-dev:armhf (1.7.0-1build1) ... Setting up libpmix-dev:armhf (5.0.1-4.1build1) ... Setting up openmpi-bin (4.1.6-7ubuntu2) ... update-alternatives: using /usr/bin/mpirun.openmpi to provide /usr/bin/mpirun (mpirun) in auto mode update-alternatives: using /usr/bin/mpicc.openmpi to provide /usr/bin/mpicc (mpi) in auto mode Setting up dh-python (6.20240401) ... Setting up libboost-graph-dev:armhf (1.83.0.1ubuntu2) ... Setting up tk8.6-blt2.5 (2.5.3+dfsg-7build1) ... Setting up python3-scipy (1.11.4-6build1) ... Setting up libboost-graph-parallel1.83.0 (1.83.0-2.1ubuntu3) ... Setting up libegl-dev:armhf (1.7.0-1build1) ... Setting up libqt5widgets5t64:armhf (5.15.13+dfsg-1ubuntu1) ... Setting up blt (2.5.3+dfsg-7build1) ... Setting up mpi-default-bin (1.15build1) ... Setting up python3-tk:armhf (3.12.3-0ubuntu1) ... Setting up libqt5help5:armhf (5.15.13-1) ... Setting up libboost-python-dev (1.83.0.1ubuntu2) ... Setting up python3-pil.imagetk:armhf (10.2.0-1build1) ... Setting up libglu1-mesa-dev:armhf (9.0.2-1.1build1) ... Setting up libqt5opengl5t64:armhf (5.15.13+dfsg-1ubuntu1) ... Setting up libopenmpi-dev:armhf (4.1.6-7ubuntu2) ... update-alternatives: using /usr/lib/arm-linux-gnueabihf/openmpi/include to provide /usr/include/arm-linux-gnueabihf/mpi (mpi-arm-linux-gnueabihf) in auto mode Setting up libgles-dev:armhf (1.7.0-1build1) ... Setting up libboost-graph-parallel1.83-dev (1.83.0-2.1ubuntu3) ... Setting up libqt5printsupport5t64:armhf (5.15.13+dfsg-1ubuntu1) ... Setting up libboost-mpi-python1.83.0 (1.83.0-2.1ubuntu3) ... Setting up libqt5designer5:armhf (5.15.13-1) ... Setting up libboost-graph-parallel-dev (1.83.0.1ubuntu2) ... Setting up qtbase5-dev:armhf (5.15.13+dfsg-1ubuntu1) ... Setting up mpi-default-dev (1.15build1) ... Setting up python3-pyqt5 (5.15.10+dfsg-1build6) ... Setting up libqt5opengl5-dev:armhf (5.15.13+dfsg-1ubuntu1) ... Setting up libboost-mpi1.83-dev (1.83.0-2.1ubuntu3) ... Setting up libboost-mpi-dev (1.83.0.1ubuntu2) ... Setting up libboost-mpi-python1.83-dev (1.83.0-2.1ubuntu3) ... Setting up libboost-mpi-python-dev (1.83.0.1ubuntu2) ... Setting up libboost-all-dev (1.83.0.1ubuntu2) ... Setting up python3-fonttools (4.46.0-1build2) ... Setting up python3-ufolib2 (0.16.0+dfsg1-1) ... Setting up python3-matplotlib (3.6.3-1ubuntu5) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.39-0ubuntu8) ... Processing triggers for systemd (255.4-1ubuntu8) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (armhf included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 5.4.0-177-generic #197-Ubuntu SMP Thu Mar 28 22:51:24 UTC 2024 arm64 (armv7l) Toolchain package versions: binutils_2.42-4ubuntu2 dpkg-dev_1.22.6ubuntu6 g++-13_13.2.0-23ubuntu4 gcc-13_13.2.0-23ubuntu4 libc6-dev_2.39-0ubuntu8 libstdc++-13-dev_13.2.0-23ubuntu4 libstdc++6_14-20240412-0ubuntu1 linux-libc-dev_6.8.0-31.31 Package versions: adduser_3.137ubuntu1 advancecomp_2.5-1build1 apt_2.7.14build2 apt-utils_2.7.14build2 autoconf_2.71-3 automake_1:1.16.5-1.3ubuntu1 autopoint_0.21-14ubuntu2 autotools-dev_20220109.1 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libxcb-keysyms1_0.4.0-1build4 libxcb-present0_1.15-1ubuntu2 libxcb-randr0_1.15-1ubuntu2 libxcb-render-util0_0.3.9-1build4 libxcb-render0_1.15-1ubuntu2 libxcb-shape0_1.15-1ubuntu2 libxcb-shm0_1.15-1ubuntu2 libxcb-sync1_1.15-1ubuntu2 libxcb-util1_0.4.0-1build3 libxcb-xfixes0_1.15-1ubuntu2 libxcb-xinerama0_1.15-1ubuntu2 libxcb-xinput0_1.15-1ubuntu2 libxcb-xkb1_1.15-1ubuntu2 libxcb1_1.15-1ubuntu2 libxcb1-dev_1.15-1ubuntu2 libxdmcp-dev_1:1.1.3-0ubuntu6 libxdmcp6_1:1.1.3-0ubuntu6 libxext-dev_2:1.3.4-1build2 libxext6_2:1.3.4-1build2 libxfixes3_1:6.0.0-2build1 libxft2_2.3.6-1build1 libxkbcommon-x11-0_1.6.0-1build1 libxkbcommon0_1.6.0-1build1 libxml2_2.9.14+dfsg-1.3ubuntu3 libxnvctrl0_510.47.03-0ubuntu4 libxrender1_1:0.9.10-1.1build1 libxshmfence1_1.3-1build5 libxslt1.1_1.1.39-0exp1build1 libxss1_1:1.2.3-1build3 libxxf86vm1_1:1.1.4-1build4 libxxhash0_0.8.2-2build1 libzstd-dev_1.5.5+dfsg2-2build1 libzstd1_1.5.5+dfsg2-2build1 linux-libc-dev_6.8.0-31.31 lockfile-progs_0.1.19+nmu1 login_1:4.13+dfsg1-4ubuntu3 logsave_1.47.0-2.4~exp1ubuntu4 lto-disabled-list_48 m4_1.4.19-4build1 make_4.3-4.1build2 man-db_2.12.0-4build2 mawk_1.3.4.20240123-1build1 media-types_10.1.0 mount_2.39.3-9ubuntu6 mpi-default-bin_1.15build1 mpi-default-dev_1.15build1 ncurses-base_6.4+20240113-1ubuntu2 ncurses-bin_6.4+20240113-1ubuntu2 netbase_6.4 ocl-icd-libopencl1_2.3.2-1build1 openmpi-bin_4.1.6-7ubuntu2 openmpi-common_4.1.6-7ubuntu2 openssh-client_1:9.6p1-3ubuntu13 openssl_3.0.13-0ubuntu3 optipng_0.7.8+ds-1build2 passwd_1:4.13+dfsg1-4ubuntu3 patch_2.7.6-7build3 perl_5.38.2-3.2build2 perl-base_5.38.2-3.2build2 perl-modules-5.36_5.36.0-9ubuntu1 perl-modules-5.38_5.38.2-3.2build2 pinentry-curses_1.2.1-3ubuntu5 pkg-config_1.8.1-2build1 pkgbinarymangler_154 pkgconf_1.8.1-2build1 pkgconf-bin_1.8.1-2build1 po-debconf_1.0.21+nmu1 policyrcd-script-zg2_0.1-3.1 procps_2:4.0.4-4ubuntu3 psmisc_23.7-1build1 python-matplotlib-data_3.6.3-1ubuntu5 python3_3.12.3-0ubuntu1 python3-appdirs_1.4.4-4 python3-attr_23.2.0-2 python3-brotli_1.1.0-2build2 python3-contourpy_1.0.7-3 python3-cycler_0.12.1-1 python3-dateutil_2.8.2-3ubuntu1 python3-decorator_5.1.1-5 python3-dev_3.12.3-0ubuntu1 python3-fonttools_4.46.0-1build2 python3-fs_2.4.16-4 python3-kiwisolver_1.4.5-1 python3-lxml_5.2.1-1 python3-lz4_4.0.2+dfsg-1build4 python3-matplotlib_3.6.3-1ubuntu5 python3-minimal_3.12.3-0ubuntu1 python3-mpmath_1.3.0-1 python3-numpy_1:1.26.4+ds-6ubuntu1 python3-packaging_24.0-1 python3-pil_10.2.0-1build1 python3-pil.imagetk_10.2.0-1build1 python3-pkg-resources_68.1.2-2ubuntu1 python3-pyparsing_3.1.1-1 python3-pyqt5_5.15.10+dfsg-1build6 python3-pyqt5.sip_12.13.0-1build3 python3-scipy_1.11.4-6build1 python3-setuptools_68.1.2-2ubuntu1 python3-six_1.16.0-4 python3-sympy_1.12-7 python3-tk_3.12.3-0ubuntu1 python3-tz_2024.1-2 python3-ufolib2_0.16.0+dfsg1-1 python3-unicodedata2_15.1.0+ds-1build1 python3.12_3.12.3-1 python3.12-dev_3.12.3-1 python3.12-minimal_3.12.3-1 qt5-qmake_5.15.13+dfsg-1ubuntu1 qt5-qmake-bin_5.15.13+dfsg-1ubuntu1 qtbase5-dev_5.15.13+dfsg-1ubuntu1 qtbase5-dev-tools_5.15.13+dfsg-1ubuntu1 qtchooser_66-2build2 readline-common_8.2-4build1 rpcsvc-proto_1.4.2-0ubuntu7 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.9-2build1 sensible-utils_0.0.22 shared-mime-info_2.4-4 sip-dev_4.19.25+dfsg-5build3 systemd_255.4-1ubuntu8 systemd-dev_255.4-1ubuntu8 systemd-sysv_255.4-1ubuntu8 sysvinit-utils_3.08-6ubuntu3 tar_1.35+dfsg-3build1 tk8.6-blt2.5_2.5.3+dfsg-7build1 tzdata_2024a-2ubuntu1 ubuntu-keyring_2023.11.28.1 unicode-data_15.1.0-1 util-linux_2.39.3-9ubuntu6 uuid-runtime_2.39.3-9ubuntu6 voronota_1.22.3149-2 x11-common_1:7.7+23ubuntu3 x11proto-dev_2024.1-1 xkb-data_2.41-2ubuntu1 xorg-sgml-doctools_1:1.11-1.1 xtrans-dev_1.4.0-1 xz-utils_5.6.1+really5.4.5-1 zlib1g_1:1.3.dfsg-3.1ubuntu2 zlib1g-dev_1:1.3.dfsg-3.1ubuntu2 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: openstructure Binary: libost-base2.5, libost-bindings2.5, libost-conop2.5, libost-db2.5, libost-geom2.5, libost-gfx2.5, libost-gui2.5, libost-img-alg2.5, libost-img2.5, libost-info2.5, libost-io2.5, libost-mol-alg2.5, libost-mol-mm2.5, libost-mol2.5, libost-seq-alg2.5, libost-seq2.5, openstructure, python3-ost, libost-base-dev, libost-bindings-dev, libost-conop-dev, libost-db-dev, libost-geom-dev, libost-gfx-dev, libost-gui-dev, libost-img-alg-dev, libost-img-dev, libost-info-dev, libost-io-dev, libost-mol-alg-dev, libost-mol-mm-dev, libost-mol-dev, libost-seq-alg-dev, libost-seq-dev Architecture: any Version: 2.5.0-1ubuntu5 Maintainer: Ubuntu Developers Uploaders: Andrius Merkys , Homepage: https://www.openstructure.org Standards-Version: 4.6.0 Vcs-Browser: https://salsa.debian.org/debichem-team/openstructure Vcs-Git: https://salsa.debian.org/debichem-team/openstructure.git Testsuite: autopkgtest Testsuite-Triggers: clustalw, dssp, ncbi-blast+, voronota Build-Depends: clustalw , cmake, debhelper-compat (= 13), dh-python, dssp , libboost-all-dev, libeigen3-dev, libfftw3-dev, libglu1-mesa-dev, libopenmm-dev [amd64 arm64 ppc64el], libopenmm-plugins [amd64 arm64 ppc64el], libpng-dev, libqt5opengl5-dev, libsqlite3-dev, libtiff-dev, python3-dev, python3-matplotlib , python3-numpy , python3-pil , python3-pyqt5, python3-scipy , qtbase5-dev, sip-dev, voronota Package-List: libost-base-dev deb libdevel optional arch=any libost-base2.5 deb libs optional arch=any libost-bindings-dev deb libdevel optional arch=any libost-bindings2.5 deb libs optional arch=any libost-conop-dev deb libdevel optional arch=any libost-conop2.5 deb libs optional arch=any libost-db-dev deb libdevel optional arch=any libost-db2.5 deb libs optional arch=any libost-geom-dev deb libdevel optional arch=any libost-geom2.5 deb libs optional arch=any libost-gfx-dev deb libdevel optional arch=any libost-gfx2.5 deb libs optional arch=any libost-gui-dev deb libdevel optional arch=any libost-gui2.5 deb libs optional arch=any libost-img-alg-dev deb libdevel optional arch=any libost-img-alg2.5 deb libs optional arch=any libost-img-dev deb libdevel optional arch=any libost-img2.5 deb libs optional arch=any libost-info-dev deb libdevel optional arch=any libost-info2.5 deb libs optional arch=any libost-io-dev deb libdevel optional arch=any libost-io2.5 deb libs optional arch=any libost-mol-alg-dev deb libdevel optional arch=any libost-mol-alg2.5 deb libs optional arch=any libost-mol-dev deb libdevel optional arch=any libost-mol-mm-dev deb libdevel optional arch=amd64,arm64,ppc64el libost-mol-mm2.5 deb libs optional arch=amd64,arm64,ppc64el libost-mol2.5 deb libs optional arch=any libost-seq-alg-dev deb libdevel optional arch=any libost-seq-alg2.5 deb libs optional arch=any libost-seq-dev deb libdevel optional arch=any libost-seq2.5 deb libs optional arch=any openstructure deb science optional arch=any python3-ost deb python optional arch=any Checksums-Sha1: dc20545446d9a11067eb8eb0aa9e9a6bc27c00a0 26358304 openstructure_2.5.0.orig.tar.xz cb3b9133f3b51f1b2361a4716d9e62e56bcc224c 92350884 openstructure_2.5.0-1ubuntu5.debian.tar.xz Checksums-Sha256: 2275f7dcd9b4fba2692ee7174cd33c0b31addd343a8c1fa183cebf84f7c131f9 26358304 openstructure_2.5.0.orig.tar.xz a89c13a53638fb0d436d5c56e467da61d53f617498773661d8b94c3146dd38d8 92350884 openstructure_2.5.0-1ubuntu5.debian.tar.xz Files: 8a733fc70a8fe31871d0daf286aa0206 26358304 openstructure_2.5.0.orig.tar.xz 131e93b176bc6a8290d63f4bb2ef83f3 92350884 openstructure_2.5.0-1ubuntu5.debian.tar.xz Original-Maintainer: Debichem Team -----BEGIN PGP SIGNATURE----- iQIzBAEBCAAdFiEErApP8SYRtvzPAcEROTWH2X2GUAsFAmYcV8QACgkQOTWH2X2G UAu6Gw//fw+6EtPj/Q5bD+DsK8If2QYKE6PWIo9PquJv6m77rvOWVKezx1FKdfT9 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dpkg-source: info: unpacking openstructure_2.5.0.orig.tar.xz dpkg-source: info: unpacking openstructure_2.5.0-1ubuntu5.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying python-dist-packages.patch dpkg-source: info: applying fix-quotes-in-ENV.patch dpkg-source: info: applying skip-network-tests.patch dpkg-source: info: applying add-python3-shebangs.patch dpkg-source: info: applying ost_config.patch dpkg-source: info: applying skip-dssp-tests.patch dpkg-source: info: applying add-dummy-test.patch Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=4 HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LOGNAME=buildd PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=build-PACKAGEBUILD-28432901 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-28432901 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-28432901 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- Command: dpkg-buildpackage -us -uc -mLaunchpad Build Daemon -B -rfakeroot dpkg-buildpackage: info: source package openstructure dpkg-buildpackage: info: source version 2.5.0-1ubuntu5 dpkg-buildpackage: info: source distribution noble dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf debian/rules clean dh clean --with python3 dh_clean debian/rules binary-arch dh binary-arch --with python3 dh_update_autotools_config -a dh_autoreconf -a debian/rules override_dh_auto_configure make[1]: Entering directory '/<>' dh_auto_configure -- -DOPTIMIZE=ON -DUBUNTU_LAYOUT=ON cd obj-arm-linux-gnueabihf && DEB_PYTHON_INSTALL_LAYOUT=deb cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/arm-linux-gnueabihf -DOPTIMIZE=ON -DUBUNTU_LAYOUT=ON .. -- The CXX compiler identification is GNU 13.2.0 -- The C compiler identification is GNU 13.2.0 -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Looking for sys/types.h -- Looking for sys/types.h - found -- Looking for stdint.h -- Looking for stdint.h - found -- Looking for stddef.h -- Looking for stddef.h - found -- Check size of void* -- Check size of void* - done CMake Warning (dev) at cmake_support/OST.cmake:892 (exec_program): Policy CMP0153 is not set: The exec_program command should not be called. Run "cmake --help-policy CMP0153" for policy details. Use the cmake_policy command to set the policy and suppress this warning. Use execute_process() instead. Call Stack (most recent call first): cmake_support/OST.cmake:921 (get_compiler_version) CMakeLists.txt:174 (setup_compiler_flags) This warning is for project developers. Use -Wno-dev to suppress it. -- Found Python: /usr/bin/python3 (found suitable version "3.12.3", minimum required is "3.6") found components: Interpreter Development Development.Module Development.Embed -- Found Boost package: python312 -- Found Boost: /usr/lib/arm-linux-gnueabihf/cmake/Boost-1.83.0/BoostConfig.cmake (found suitable version "1.83.0", minimum required is "1.31") found components: unit_test_framework -- Found Boost: /usr/lib/arm-linux-gnueabihf/cmake/Boost-1.83.0/BoostConfig.cmake (found suitable version "1.83.0", minimum required is "1.31") found components: filesystem system -- Found Boost: /usr/lib/arm-linux-gnueabihf/cmake/Boost-1.83.0/BoostConfig.cmake (found suitable version "1.83.0", minimum required is "1.31") found components: iostreams -- Found Boost: /usr/lib/arm-linux-gnueabihf/cmake/Boost-1.83.0/BoostConfig.cmake (found suitable version "1.83.0", minimum required is "1.31") found components: program_options -- Found Boost: /usr/lib/arm-linux-gnueabihf/cmake/Boost-1.83.0/BoostConfig.cmake (found suitable version "1.83.0", minimum required is "1.31") found components: regex -- Found Boost: /usr/lib/arm-linux-gnueabihf/cmake/Boost-1.83.0/BoostConfig.cmake (found suitable version "1.83.0", minimum required is "1.31") found components: thread -- Found OpenGL: /usr/lib/arm-linux-gnueabihf/libOpenGL.so -- Found EIGEN: /usr/include/eigen3 (Required is at least version "3.2.0") -- Found SQLITE3: /usr/lib/arm-linux-gnueabihf/libsqlite3.so (Required is at least version "3.7.13") -- Found ZLIB: /usr/lib/arm-linux-gnueabihf/libz.so (found version "1.3") -- Found PNG: /usr/lib/arm-linux-gnueabihf/libpng.so (found version "1.6.43") -- Found FFTW: /usr/lib/arm-linux-gnueabihf/libfftw3f.so -- Found TIFF: /usr/lib/arm-linux-gnueabihf/libtiff.so (found version "4.5.1") -- Searching for python module PyQt5 for /usr/bin/python3 -- Found python module PyQt5 -- Searching for python module PyQt5.sip for /usr/bin/python3 -- Found python module PyQt5.sip -- OpenStructure will be built with the following options: Install Prefix (-DPREFIX) : /usr RPath in install (-DUSE_RPATH) : OFF Info support (-DENABLE_INFO) : ON Graphical interface (-DENABLE_GUI) : ON OpenGL support (-DENABLE_GFX) : ON Shader support (-DUSE_SHADER) : OFF Numpy support (-DUSE_NUMPY) : OFF SpaceNav Device support (-DENABLE_SPNAV) : OFF OpenMM support (-DENABLE_MM) : OFF OpenMM plugins (-DOPEN_MM_PLUGIN_DIR) : NONE Optimize (-DOPTIMIZE) : ON Profiling support (-DPROFILE) : OFF Double Precision (-DUSE_DOUBLE_PRECISION) : OFF Compound Lib (-DCOMPOUND_LIB) : NONE TMAlign and TMScore (-DCOMPILE_TMTOOLS) : OFF Static Libraries (-DENABLE_STATIC) : OFF Debian/Ubuntu directory layout (-DUBUNTU_LAYOUT) : ON Hidden object visibility (-DHIDDEN_VISIBILITY) : OFF -- Configuring done (3.4s) -- Generating done (1.2s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /<>/obj-arm-linux-gnueabihf make[1]: Leaving directory '/<>' dh_auto_build -a cd obj-arm-linux-gnueabihf && make -j4 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/<>/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/<> -B/<>/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/obj-arm-linux-gnueabihf/CMakeFiles /<>/obj-arm-linux-gnueabihf//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/<>/obj-arm-linux-gnueabihf' make -f modules/base/src/CMakeFiles/create_stage.dir/build.make modules/base/src/CMakeFiles/create_stage.dir/depend make -f modules/base/pymod/CMakeFiles/subst___init__.py.dir/build.make modules/base/pymod/CMakeFiles/subst___init__.py.dir/depend make -f modules/bindings/pymod/CMakeFiles/ost_bindings_pymod.dir/build.make modules/bindings/pymod/CMakeFiles/ost_bindings_pymod.dir/depend make -f modules/conop/pymod/CMakeFiles/ost_conop_pymod.dir/build.make modules/conop/pymod/CMakeFiles/ost_conop_pymod.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/base/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/base/src /<>/obj-arm-linux-gnueabihf/modules/base/src/CMakeFiles/create_stage.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/base/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/base/pymod /<>/obj-arm-linux-gnueabihf/modules/base/pymod/CMakeFiles/subst___init__.py.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/bindings/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod/CMakeFiles/ost_bindings_pymod.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/conop/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/conop/pymod /<>/obj-arm-linux-gnueabihf/modules/conop/pymod/CMakeFiles/ost_conop_pymod.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/base/pymod/CMakeFiles/subst___init__.py.dir/build.make modules/base/pymod/CMakeFiles/subst___init__.py.dir/build make -f modules/base/src/CMakeFiles/create_stage.dir/build.make modules/base/src/CMakeFiles/create_stage.dir/build make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/conop/pymod/CMakeFiles/ost_conop_pymod.dir/build.make modules/conop/pymod/CMakeFiles/ost_conop_pymod.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/cmake -DINPUT_FILE=/<>/modules/base/pymod/__init__.py.in -DOUT_FILE=__init__.py -DALL_ADDITIONAL_MODULES=,\'gui\',\'gfx\',\'img\',\'info\' -P /<>/cmake_support/substitute.cmake make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/bindings/pymod/CMakeFiles/ost_bindings_pymod.dir/build.make modules/bindings/pymod/CMakeFiles/ost_bindings_pymod.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E make_directory /<>/obj-arm-linux-gnueabihf/stage/lib make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/conop/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/conop/pymod/./__init__.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/conop/./__init__.py make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/bindings/pymod/./__init__.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./__init__.py make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E make_directory /<>/obj-arm-linux-gnueabihf/stage/bin cd /<>/obj-arm-linux-gnueabihf/modules/conop/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/conop/pymod/./cleanup.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/conop/./cleanup.py [ 0%] Built target subst___init__.py make -f modules/db/pymod/CMakeFiles/ost_db_pymod.dir/build.make modules/db/pymod/CMakeFiles/ost_db_pymod.dir/depend cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/bindings/pymod/./lga.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./lga.py cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E make_directory /<>/obj-arm-linux-gnueabihf/stage/lib/openstructure/libexec make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/db/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/db/pymod /<>/obj-arm-linux-gnueabihf/modules/db/pymod/CMakeFiles/ost_db_pymod.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/bindings/pymod/./hbplus.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./hbplus.py make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/db/pymod/CMakeFiles/ost_db_pymod.dir/build.make modules/db/pymod/CMakeFiles/ost_db_pymod.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/db/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/db/pymod/./__init__.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/db/./__init__.py cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E make_directory /<>/obj-arm-linux-gnueabihf/tests [ 0%] Built target ost_conop_pymod make -f modules/geom/pymod/CMakeFiles/ost_geom_pymod.dir/build.make modules/geom/pymod/CMakeFiles/ost_geom_pymod.dir/depend cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/bindings/pymod/./msms.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./msms.py make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/geom/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/geom/pymod /<>/obj-arm-linux-gnueabihf/modules/geom/pymod/CMakeFiles/ost_geom_pymod.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/bindings/pymod/./tmtools.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./tmtools.py [ 0%] Built target create_stage make -f modules/gfx/pymod/CMakeFiles/ost_gfx_pymod.dir/build.make modules/gfx/pymod/CMakeFiles/ost_gfx_pymod.dir/depend make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/geom/pymod/CMakeFiles/ost_geom_pymod.dir/build.make modules/geom/pymod/CMakeFiles/ost_geom_pymod.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/gfx/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod/CMakeFiles/ost_gfx_pymod.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/geom/pymod/./__init__.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/geom/./__init__.py [ 0%] Built target ost_db_pymod make -f modules/gui/src/CMakeFiles/ost_gui_headers.dir/build.make modules/gui/src/CMakeFiles/ost_gui_headers.dir/depend cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/bindings/pymod/./dssp.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./dssp.py make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/gui/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/gui/src /<>/obj-arm-linux-gnueabihf/modules/gui/src/CMakeFiles/ost_gui_headers.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/gfx/pymod/CMakeFiles/ost_gfx_pymod.dir/build.make modules/gfx/pymod/CMakeFiles/ost_gfx_pymod.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/pymod/./__init__.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gfx/./__init__.py make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/gui/src/CMakeFiles/ost_gui_headers.dir/build.make modules/gui/src/CMakeFiles/ost_gui_headers.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/bindings/pymod/./clustalw.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./clustalw.py make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/tools/tool.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool.hh [ 0%] Built target ost_geom_pymod make -f modules/gui/share/CMakeFiles/scene_icons.dir/build.make modules/gui/share/CMakeFiles/scene_icons.dir/depend cd /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/pymod/./py_gfx_obj.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gfx/./py_gfx_obj.py make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/gui/share /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/gui/share /<>/obj-arm-linux-gnueabihf/modules/gui/share/CMakeFiles/scene_icons.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/tools/tool_option_group.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_option_group.hh cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/bindings/pymod/./utils.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./utils.py make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/tools/tool_options.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_options.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/gui/share/CMakeFiles/scene_icons.dir/build.make modules/gui/share/CMakeFiles/scene_icons.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/bindings/pymod/./naccess.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./naccess.py make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /<>/modules/gui/share/icons/add_icon.png /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/add_icon.png [ 0%] Built target ost_gfx_pymod make -f modules/gui/share/CMakeFiles/gui_images.dir/build.make modules/gui/share/CMakeFiles/gui_images.dir/depend cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/tools/tool_bar.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_bar.hh cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/bindings/pymod/./hhblits.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./hhblits.py make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/gui/share /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/gui/share /<>/obj-arm-linux-gnueabihf/modules/gui/share/CMakeFiles/gui_images.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /<>/modules/gui/share/icons/close_icon.png /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/close_icon.png cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/tools/selection_tool.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/selection_tool.hh cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/bindings/pymod/./hhblits2.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./hhblits2.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /<>/modules/gui/share/icons/critical_icon.png /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/critical_icon.png make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/gui/share/CMakeFiles/gui_images.dir/build.make modules/gui/share/CMakeFiles/gui_images.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/tools/measure_tool.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/measure_tool.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /<>/modules/gui/share/icons/delete_icon.png /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/delete_icon.png make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /<>/modules/gui/share/images/logo-small.png /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/images/logo-small.png cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/bindings/pymod/./hhblits3.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./hhblits3.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/tools/tool_option.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_option.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /<>/modules/gui/share/icons/distance_icon.png /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/distance_icon.png make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/bindings/pymod/./blast.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./blast.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/tools/tool_manager.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_manager.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /<>/modules/gui/share/icons/find_icon.png /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/find_icon.png [ 0%] Built target gui_images make -f modules/gui/pymod/CMakeFiles/ost_gui_scene_pymod.dir/build.make modules/gui/pymod/CMakeFiles/ost_gui_scene_pymod.dir/depend cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/bindings/pymod/./cadscore.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./cadscore.py make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/gui/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/gui/pymod /<>/obj-arm-linux-gnueabihf/modules/gui/pymod/CMakeFiles/ost_gui_scene_pymod.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /<>/modules/gui/share/icons/information_icon.png /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/information_icon.png cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/tools/tool_options_widget.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_options_widget.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/gui/pymod/CMakeFiles/ost_gui_scene_pymod.dir/build.make modules/gui/pymod/CMakeFiles/ost_gui_scene_pymod.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/bindings/pymod/./kclust.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./kclust.py make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/__init__.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/__init__.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /<>/modules/gui/share/icons/map_icon.png /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/map_icon.png cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/color_options_widget.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/color_options_widget.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/tools/manipulator.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/manipulator.hh cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/bindings/pymod/./ialign.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./ialign.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /<>/modules/gui/share/icons/menubar_icon.png /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/menubar_icon.png cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/tools/tool_options_win.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_options_win.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/color_select_widget.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/color_select_widget.py cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/bindings/pymod/./mmseqs2.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./mmseqs2.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /<>/modules/gui/share/icons/rigid_body_manipulator_icon.png /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/rigid_body_manipulator_icon.png cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/combo_options_widget.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/combo_options_widget.py cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/bindings/pymod/./dockq.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./dockq.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/tools/mouse_event.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/cpk_widget.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/cpk_widget.py make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /<>/modules/gui/share/icons/selection_icon.png /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/selection_icon.png cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/tools/map_tool.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/map_tool.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/custom_widget.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/custom_widget.py [ 0%] Built target ost_bindings_pymod make -f modules/gui/pymod/CMakeFiles/ost_gui_dng_pymod.dir/build.make modules/gui/pymod/CMakeFiles/ost_gui_dng_pymod.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/gui/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/gui/pymod /<>/obj-arm-linux-gnueabihf/modules/gui/pymod/CMakeFiles/ost_gui_dng_pymod.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /<>/modules/gui/share/icons/show_sidebar_icon.png /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/show_sidebar_icon.png cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/gradient_editor_widget.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/gradient_editor_widget.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/align_properties_painter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/align_properties_painter.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/gui/pymod/CMakeFiles/ost_gui_dng_pymod.dir/build.make modules/gui/pymod/CMakeFiles/ost_gui_dng_pymod.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/dng/__init__.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/dng/__init__.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /<>/modules/gui/share/icons/site_icon.png /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/site_icon.png cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/base_row.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/base_row.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/gradient_info_handler.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/gradient_info_handler.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/dng/termuse.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/dng/termuse.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /<>/modules/gui/share/icons/split_icon.png /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/split_icon.png cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/gradient_list_model.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/gradient_list_model.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/background_painter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/background_painter.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/dng/superpositiondialog.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/dng/superpositiondialog.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /<>/modules/gui/share/icons/warning_icon.png /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/warning_icon.png cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/gradient_preset_widget.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/gradient_preset_widget.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/conservation_painter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/conservation_painter.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/dng/init.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/dng/init.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/share && /usr/bin/cmake -E copy_if_different /<>/modules/gui/share/icons/refresh.png /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/gui/icons/refresh.png cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/hsc_widget.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/hsc_widget.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/painter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/painter.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/dng/menu.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/dng/menu.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/immutable_gradient_info_handler.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/immutable_gradient_info_handler.py make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/immutable_preset_info_handler.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/immutable_preset_info_handler.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/secstr_row.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/secstr_row.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 0%] Built target scene_icons make -f modules/gui/pymod/CMakeFiles/ost_gui_pymod.dir/build.make modules/gui/pymod/CMakeFiles/ost_gui_pymod.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/gui/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/gui/pymod /<>/obj-arm-linux-gnueabihf/modules/gui/pymod/CMakeFiles/ost_gui_pymod.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/init_inspector.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/init_inspector.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/seq_secstr_painter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/seq_secstr_painter.hh [ 0%] Built target ost_gui_dng_pymod make -f modules/img/base/pymod/CMakeFiles/ost_img_pymod.dir/build.make modules/img/base/pymod/CMakeFiles/ost_img_pymod.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/img/base/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/img/base/pymod /<>/obj-arm-linux-gnueabihf/modules/img/base/pymod/CMakeFiles/ost_img_pymod.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/gui/pymod/CMakeFiles/ost_gui_pymod.dir/build.make modules/gui/pymod/CMakeFiles/ost_gui_pymod.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/./__init__.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/./__init__.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/seq_selection_painter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/seq_selection_painter.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/inspector_widget.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/inspector_widget.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/./init_context_menu.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/./init_context_menu.py make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/img/base/pymod/CMakeFiles/ost_img_pymod.dir/build.make modules/img/base/pymod/CMakeFiles/ost_img_pymod.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/map_level_widget.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/map_level_widget.py make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/pymod/./__init__.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/img/./__init__.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/seq_text_painter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/seq_text_painter.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/./init_menubar.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/./init_menubar.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/preset.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/preset.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/sequence_delegate.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_delegate.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/./init_spacenav.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/./init_spacenav.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/remote.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/remote.py [ 0%] Built target ost_img_pymod make -f modules/img/alg/pymod/CMakeFiles/ost_img_alg_pymod.dir/build.make modules/img/alg/pymod/CMakeFiles/ost_img_alg_pymod.dir/depend cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/sequence_model.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_model.hh make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/img/alg/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/img/alg/pymod /<>/obj-arm-linux-gnueabihf/modules/img/alg/pymod/CMakeFiles/ost_img_alg_pymod.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/./init_splash.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/./init_splash.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/preset_editor_list_model.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/preset_editor_list_model.py make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/sequence_row.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_row.hh make -f modules/img/alg/pymod/CMakeFiles/ost_img_alg_pymod.dir/build.make modules/img/alg/pymod/CMakeFiles/ost_img_alg_pymod.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/pymod/./__init__.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/img/alg/./__init__.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/./trajectory_viewer.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/./trajectory_viewer.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/preset_editor_widget.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/preset_editor_widget.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/sequence_search_bar.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_search_bar.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/./helpwidget.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/./helpwidget.py make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/preset_info_handler.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/preset_info_handler.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/sequence_table_view.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_table_view.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/./table.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/./table.py [ 0%] Built target ost_img_alg_pymod make -f modules/info/pymod/CMakeFiles/ost_info_pymod.dir/build.make modules/info/pymod/CMakeFiles/ost_info_pymod.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/info/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/info/pymod /<>/obj-arm-linux-gnueabihf/modules/info/pymod/CMakeFiles/ost_info_pymod.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/preset_list_model.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/preset_list_model.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/./gosty_startup.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/./gosty_startup.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/sequence_viewer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_viewer.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/preset_widget.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/preset_widget.py make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/info/pymod/CMakeFiles/ost_info_pymod.dir/build.make modules/info/pymod/CMakeFiles/ost_info_pymod.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/info/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/info/pymod/./__init__.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/info/./__init__.py make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/tick_painter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/tick_painter.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/render_mode_widget.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/render_mode_widget.py [ 0%] Built target ost_gui_pymod make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/io/pymod/CMakeFiles/ost_io_pymod.dir/build.make modules/io/pymod/CMakeFiles/ost_io_pymod.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/io/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/io/pymod /<>/obj-arm-linux-gnueabihf/modules/io/pymod/CMakeFiles/ost_io_pymod.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/title_row.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/title_row.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/render_op.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/render_op.py [ 0%] Built target ost_info_pymod make -f modules/mol/base/pymod/CMakeFiles/ost_mol_pymod.dir/build.make modules/mol/base/pymod/CMakeFiles/ost_mol_pymod.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/mol/base/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/mol/base/pymod /<>/obj-arm-linux-gnueabihf/modules/mol/base/pymod/CMakeFiles/ost_mol_pymod.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/io/pymod/CMakeFiles/ost_io_pymod.dir/build.make modules/io/pymod/CMakeFiles/ost_io_pymod.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/alignment_view_object.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/alignment_view_object.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/render_options_widget.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/render_options_widget.py make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/io/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/io/pymod/./__init__.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/io/./__init__.py make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/mol/base/pymod/CMakeFiles/ost_mol_pymod.dir/build.make modules/mol/base/pymod/CMakeFiles/ost_mol_pymod.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/io/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/io/pymod/./remote.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/io/./remote.py make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/pymod/./__init__.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/./__init__.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/scene_observer_impl.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/scene_observer_impl.py make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/scene_selection_helper.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/scene_selection_helper.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/base_view_object.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/base_view_object.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/io/pymod/./repository.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/io/./repository.py [ 0%] Built target ost_mol_pymod make -f modules/mol/alg/pymod/CMakeFiles/ost_mol_alg_pymod.dir/build.make modules/mol/alg/pymod/CMakeFiles/ost_mol_alg_pymod.dir/depend cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/simple_widget.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/simple_widget.py make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/mol/alg/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod/CMakeFiles/ost_mol_alg_pymod.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/sequence_view_object.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_view_object.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/sline_widget.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/sline_widget.py make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/mol/alg/pymod/CMakeFiles/ost_mol_alg_pymod.dir/build.make modules/mol/alg/pymod/CMakeFiles/ost_mol_alg_pymod.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/main_thread_runner.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/main_thread_runner.hh make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/pymod/./__init__.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./__init__.py [ 0%] Built target ost_io_pymod make -f modules/seq/base/pymod/CMakeFiles/ost_seq_pymod.dir/build.make modules/seq/base/pymod/CMakeFiles/ost_seq_pymod.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/seq/base/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/seq/base/pymod /<>/obj-arm-linux-gnueabihf/modules/seq/base/pymod/CMakeFiles/ost_seq_pymod.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/toolbar_options_widget.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/toolbar_options_widget.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/output_redirector.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/output_redirector.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/pymod/./views.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./views.py make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/seq/base/pymod/CMakeFiles/ost_seq_pymod.dir/build.make modules/seq/base/pymod/CMakeFiles/ost_seq_pymod.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/pymod/./__init__.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/seq/./__init__.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/trace_widget.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/trace_widget.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/completer_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/completer_base.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/pymod/./superpose.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./superpose.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/tube_widget.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/tube_widget.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/dir_model.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/dir_model.hh [ 0%] Built target ost_seq_pymod make -f modules/seq/alg/pymod/CMakeFiles/ost_seq_alg_pymod.dir/build.make modules/seq/alg/pymod/CMakeFiles/ost_seq_alg_pymod.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/seq/alg/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/seq/alg/pymod /<>/obj-arm-linux-gnueabihf/modules/seq/alg/pymod/CMakeFiles/ost_seq_alg_pymod.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/pymod/./qsscoring.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./qsscoring.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/uniform_color_widget.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/uniform_color_widget.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/gutter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/gutter.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/seq/alg/pymod/CMakeFiles/ost_seq_alg_pymod.dir/build.make modules/seq/alg/pymod/CMakeFiles/ost_seq_alg_pymod.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/pymod/./trajectory_analysis.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./trajectory_analysis.py make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/pymod/./__init__.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/seq/alg/./__init__.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/visibility_op.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/visibility_op.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/path_completer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/path_completer.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/pymod/./structure_analysis.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./structure_analysis.py cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/pymod/./mat.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/seq/alg/./mat.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/python_context_parser.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_context_parser.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/line_trace_widget.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/line_trace_widget.py cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/pymod/./helix_kinks.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./helix_kinks.py cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/pymod/./renumber.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/seq/alg/./renumber.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/python_completer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_completer.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/wireframe_widget.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/wireframe_widget.py cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/pymod/./hbond.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./hbond.py cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/pymod/./aaindex.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/seq/alg/./aaindex.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/python_shell.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_shell.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/query_editor.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/query_editor.py cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/pymod/./lddt.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./lddt.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/python_shell_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_shell_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/pymod/aaindex1 /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/aaindex/aaindex1 make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/pymod/./qsscore.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./qsscore.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/python_shell_widget.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_shell_widget.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/pymod/aaindex2 /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/aaindex/aaindex2 [ 0%] Built target ost_gui_scene_pymod make -f scripts/CMakeFiles/subst_ost_startup.py.dir/build.make scripts/CMakeFiles/subst_ost_startup.py.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/scripts /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/scripts /<>/obj-arm-linux-gnueabihf/scripts/CMakeFiles/subst_ost_startup.py.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/pymod/./scoring.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./scoring.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/python_tokenizer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_tokenizer.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/pymod/aaindex3 /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/aaindex/aaindex3 make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f scripts/CMakeFiles/subst_ost_startup.py.dir/build.make scripts/CMakeFiles/subst_ost_startup.py.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -DINPUT_FILE=/<>/scripts/ost_startup.py.in -DOUT_FILE=ost_startup.py -DBUILD_TYPE=Release -DPython_EXECUTABLE=/usr/bin/python3 -DPython_VERSION=3.12.3 -DLIBDIR=lib -DLIBEXEC_PATH=lib/openstructure/libexec -DPYTHON_MODULE_PATH=python3.12/dist-packages/ -P /<>/cmake_support/substitute.cmake cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/pymod/./chain_mapping.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./chain_mapping.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/python_syntax_highlighter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_syntax_highlighter.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/pymod/./stereochemistry.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./stereochemistry.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/text_logger.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh [ 0%] Built target ost_seq_alg_pymod [ 0%] Built target subst_ost_startup.py make -f scripts/CMakeFiles/subst_ost_config.dir/build.make scripts/CMakeFiles/subst_ost_config.dir/depend make -f scripts/CMakeFiles/subst_ost.dir/build.make scripts/CMakeFiles/subst_ost.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/scripts /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/scripts /<>/obj-arm-linux-gnueabihf/scripts/CMakeFiles/subst_ost_config.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/scripts /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/scripts /<>/obj-arm-linux-gnueabihf/scripts/CMakeFiles/subst_ost.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/pymod/./ligand_scoring.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./ligand_scoring.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/python_interpreter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f scripts/CMakeFiles/subst_ost.dir/build.make scripts/CMakeFiles/subst_ost.dir/build make -f scripts/CMakeFiles/subst_ost_config.dir/build.make scripts/CMakeFiles/subst_ost_config.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -DINPUT_FILE=/<>/scripts/ost.in -DOUT_FILE=ost -DBUILD_TYPE=Release -DPython_EXECUTABLE=/usr/bin/python3 -DPython_VERSION=3.12.3 -DLIBDIR=lib -DLIBEXEC_PATH=lib/openstructure/libexec -DPYTHON_MODULE_PATH=python3.12/dist-packages/ -P /<>/cmake_support/substitute.cmake cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/pymod/./dockq.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./dockq.py make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -DINPUT_FILE=/<>/scripts/ost_config.in -DOUT_FILE=ost_config -DBUILD_TYPE=Release -DPython_EXECUTABLE=/usr/bin/python3 -DPython_VERSION=3.12.3 -DLIBDIR=lib -DLIBEXEC_PATH=lib/openstructure/libexec -DPYTHON_MODULE_PATH=python3.12/dist-packages/ -P /<>/cmake_support/substitute.cmake cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/python_interpreter_worker.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/pymod/stereo_data.json /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/stereo_data.json make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/python_shell_text_document_layout.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_shell_text_document_layout.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 0%] Built target subst_ost_config [ 0%] Built target subst_ost make -f scripts/CMakeFiles/subst_dng.dir/build.make scripts/CMakeFiles/subst_dng.dir/depend make -f actions/CMakeFiles/actions.dir/build.make actions/CMakeFiles/actions.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/scripts /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/scripts /<>/obj-arm-linux-gnueabihf/scripts/CMakeFiles/subst_dng.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/actions /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/actions /<>/obj-arm-linux-gnueabihf/actions/CMakeFiles/actions.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/shell_history.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/shell_history.hh [ 0%] Built target ost_mol_alg_pymod make -f modules/geom/src/CMakeFiles/ost_geom_headers.dir/build.make modules/geom/src/CMakeFiles/ost_geom_headers.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/geom/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/geom/src /<>/obj-arm-linux-gnueabihf/modules/geom/src/CMakeFiles/ost_geom_headers.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f scripts/CMakeFiles/subst_dng.dir/build.make scripts/CMakeFiles/subst_dng.dir/build make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f actions/CMakeFiles/actions.dir/build.make actions/CMakeFiles/actions.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -DINPUT_FILE=/<>/scripts/dng.in -DOUT_FILE=dng -DBUILD_TYPE=Release -DPython_EXECUTABLE=/usr/bin/python3 -DPython_VERSION=3.12.3 -DLIBDIR=lib -DLIBEXEC_PATH=lib/openstructure/libexec -DPYTHON_MODULE_PATH=python3.12/dist-packages/ -P /<>/cmake_support/substitute.cmake cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/state_machine.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/state_machine.hh make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/actions && /usr/bin/cmake -E copy_if_different /<>/actions/ost-compare-ligand-structures /<>/obj-arm-linux-gnueabihf/stage/lib/openstructure/libexec/ost-compare-ligand-structures make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/geom/src/CMakeFiles/ost_geom_headers.dir/build.make modules/geom/src/CMakeFiles/ost_geom_headers.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/state.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/state.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/export_helper/vector.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/export_helper/vector.hh cd /<>/obj-arm-linux-gnueabihf/actions && /usr/bin/cmake -E copy_if_different /<>/actions/ost-compare-structures /<>/obj-arm-linux-gnueabihf/stage/lib/openstructure/libexec/ost-compare-structures [ 0%] Built target subst_dng cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/transition.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/transition.hh make -f modules/config/CMakeFiles/ost_config_headers.dir/build.make modules/config/CMakeFiles/ost_config_headers.dir/depend cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./def.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./def.hh make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/config /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/config /<>/obj-arm-linux-gnueabihf/modules/config/CMakeFiles/ost_config_headers.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/actions && /usr/bin/cmake -E copy_if_different /<>/actions/ost-compare-structures-legacy /<>/obj-arm-linux-gnueabihf/stage/lib/openstructure/libexec/ost-compare-structures-legacy cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./exc.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./exc.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/transition_guard.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/transition_guard.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/config/CMakeFiles/ost_config_headers.dir/build.make modules/config/CMakeFiles/ost_config_headers.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/config && /usr/bin/cmake -E copy_if_different /<>/modules/config/./base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./base.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/panels/button_bar.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/button_bar.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./geom.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./geom.hh [ 0%] Built target actions make -f modules/base/src/CMakeFiles/ost_base_headers.dir/build.make modules/base/src/CMakeFiles/ost_base_headers.dir/depend cd /<>/obj-arm-linux-gnueabihf/modules/config && /usr/bin/cmake -E copy_if_different /<>/modules/config/./config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./config.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/panels/drop_box.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/drop_box.hh make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/base/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/base/src /<>/obj-arm-linux-gnueabihf/modules/base/src/CMakeFiles/ost_base_headers.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./mat.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./mat.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/panels/panel_bar.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/panel_bar.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/base/src/CMakeFiles/ost_base_headers.dir/build.make modules/base/src/CMakeFiles/ost_base_headers.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/config && /usr/bin/cmake -E copy_if_different /<>/modules/config/./dllexport.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./dllexport.hh make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/export_helper/generic_property_def.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/export_helper/generic_property_def.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./mat2.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./mat2.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/panels/panel_manager.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/panel_manager.hh cd /<>/obj-arm-linux-gnueabihf/modules/config && /usr/bin/cmake -E copy_if_different /<>/modules/config/./version.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./version.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/export_helper/pair_to_tuple_conv.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/export_helper/pair_to_tuple_conv.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/panels/bottom_bar.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/bottom_bar.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./mat3.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./mat3.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/export_helper/vec_to_list_conv.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/export_helper/vec_to_list_conv.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/panels/button_box.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/button_box.hh [ 0%] Built target ost_config_headers make -f modules/base/pymod/CMakeFiles/ost_base_pymod.dir/build.make modules/base/pymod/CMakeFiles/ost_base_pymod.dir/depend cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./mat4.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./mat4.hh make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/base/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/base/pymod /<>/obj-arm-linux-gnueabihf/modules/base/pymod/CMakeFiles/ost_base_pymod.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/test_utils/compare_files.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/test_utils/compare_files.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/panels/event_button.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/event_button.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./vec.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vec.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/base/pymod/CMakeFiles/ost_base_pymod.dir/build.make modules/base/pymod/CMakeFiles/ost_base_pymod.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/base/pymod/./settings.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/./settings.py cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./generic_property.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./generic_property.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./vec2.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vec2.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/panels/panel_widget_container.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/panel_widget_container.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./integrity_error.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./integrity_error.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/base/pymod/./stutil.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/./stutil.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/panels/panel_bar_widget_holder.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/panel_bar_widget_holder.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./vec3.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vec3.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./invalid_handle.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./invalid_handle.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/base/pymod/./table.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/./table.py cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./vec4.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vec4.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/base/pymod/./table_selector.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/./table_selector.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/panels/side_bar.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/side_bar.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./vecmat_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vecmat_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./ptr_observer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./ptr_observer.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/panels/splitter_panel_bar.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/splitter_panel_bar.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/base/pymod/./xmlrunner.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/./xmlrunner.py cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./log.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./log.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./vecmat2_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vecmat2_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/panels/tabbed_panel_bar.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/tabbed_panel_bar.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/base/pymod/./testutils.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/./testutils.py cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./log_sink.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./log_sink.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./vecmat3_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vecmat3_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/cmake -E copy_if_different __init__.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/__init__.py cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/scene_win/context_menu.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/context_menu.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./profile.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./profile.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./vecmat4_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vecmat4_op.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/scene_win/current_selection_node.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/current_selection_node.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./circular_iterator.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./circular_iterator.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./dyn_cast.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./dyn_cast.hh [ 0%] Built target ost_base_pymod make -f modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/build.make modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/depend cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/scene_win/custom_part_node.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/custom_part_node.hh make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/seq/base/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/seq/base/src /<>/obj-arm-linux-gnueabihf/modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./stdint.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./stdint.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./constants.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./constants.hh make -f modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/build.make modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/scene_win/entity_node.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/entity_node.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./stdint_msc.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./stdint_msc.hh make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/impl/sequence_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_impl.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./range.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./range.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/scene_win/entity_part_node.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/entity_part_node.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/impl/sequence_impl_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_impl_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./composite.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./composite.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./module_config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./module_config.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/scene_win/gfx_scene_node.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/gfx_scene_node.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./composite2.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./composite2.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/impl/sequence_list_impl_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_impl_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/scene_win/label_node.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/label_node.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./units.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./units.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./composite3.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./composite3.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/impl/sequence_list_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_impl.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./message.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./message.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/scene_win/root_node.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/root_node.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/impl/sequence_list_iterator.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./platform.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./platform.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./composite_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./composite_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/scene_win/render_mode_node.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/render_mode_node.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/./sequence_list.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/./sequence_list.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./string_ref.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./string_ref.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/scene_win/render_modes_node.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/render_modes_node.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./composite2_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./composite2_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/./sequence_handle.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/./sequence_handle.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./pod_vector.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./pod_vector.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/scene_win/scene_node.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/scene_node.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./composite3_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./composite3_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/./alignment_handle.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/./alignment_handle.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./fixed_string.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./fixed_string.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/scene_win/scene_win.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/scene_win.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/./module_config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/./module_config.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./aligned_cuboid.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./aligned_cuboid.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/scene_win/scene_win_model.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/scene_win_model.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./tri_matrix.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./tri_matrix.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/./sequence_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/./sequence_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./vec_mat_predicates.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vec_mat_predicates.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./boost_filesystem_helper.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./boost_filesystem_helper.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/messages/message_widget.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/messages/message_widget.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/./aligned_region.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/./aligned_region.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./quat.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./quat.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/messages/message_box_widget.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/messages/message_box_widget.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/./aligned_column.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/./aligned_column.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./paged_array.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./paged_array.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./transform.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./transform.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/./aligned_column_iterator.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/./aligned_column_iterator.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/messages/log_reader.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/messages/log_reader.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./point_cloud.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./point_cloud.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/./invalid_sequence.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/./invalid_sequence.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/argand.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/argand.hh [ 0%] Built target ost_base_headers make -f modules/info/src/CMakeFiles/ost_info_headers.dir/build.make modules/info/src/CMakeFiles/ost_info_headers.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/info/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/info/src /<>/obj-arm-linux-gnueabihf/modules/info/src/CMakeFiles/ost_info_headers.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/data_viewer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/data_viewer.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./module_config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./module_config.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/./views_from_sequences.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/./views_from_sequences.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/info/src/CMakeFiles/ost_info_headers.dir/build.make modules/info/src/CMakeFiles/ost_info_headers.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./info.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./info.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/data_viewer_panel.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/data_viewer_panel.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/data_viewer_panel_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/data_viewer_panel_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/./profile_handle.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/./profile_handle.hh cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./info_error.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_error.hh [ 0%] Built target ost_geom_headers make -f modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/build.make modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/mol/base/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/mol/base/src /<>/obj-arm-linux-gnueabihf/modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/draw_overlay.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/draw_overlay.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./info_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_impl.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/build.make modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/drawing_functions.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/drawing_functions.hh [ 0%] Built target ost_seq_headers make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/pointer_iterator.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh make -f modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/build.make modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/bindings/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/bindings/src /<>/obj-arm-linux-gnueabihf/modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./info_impl_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_impl_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/fft_panel.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/fft_panel.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/atom_group.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/atom_group.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/build.make modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/info_panel.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/info_panel.hh cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./info_handle.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_handle.hh make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/bindings/src && /usr/bin/cmake -E copy_if_different /<>/modules/bindings/src/./wrap_tmalign.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/bindings/./wrap_tmalign.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/atom_prop.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/atom_prop.hh cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./info_group.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_group.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/img2qt.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/img2qt.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/atom_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/atom_impl.hh cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./info_item.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_item.hh [ 0%] Built target ost_bindings_headers make -f modules/conop/src/CMakeFiles/ost_conop_headers.dir/build.make modules/conop/src/CMakeFiles/ost_conop_headers.dir/depend cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/mask_overlay.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/mask_overlay.hh make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/conop/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/conop/src /<>/obj-arm-linux-gnueabihf/modules/conop/src/CMakeFiles/ost_conop_headers.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/atom_impl_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/atom_impl_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./info_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/null_overlay.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/null_overlay.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/conop/src/CMakeFiles/ost_conop_headers.dir/build.make modules/conop/src/CMakeFiles/ost_conop_headers.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /<>/modules/conop/src/./conop.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/./conop.hh cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./module_config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./module_config.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/chain_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/chain_impl.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/overlay.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/overlay.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/chain_impl_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/chain_impl_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /<>/modules/conop/src/./processor.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/./processor.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/overlay_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/overlay_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./info_path.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_path.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/connector_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/connector_impl.hh cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /<>/modules/conop/src/./amino_acids.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/./amino_acids.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/overlay_base_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/overlay_base_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./info_set.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_set.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/connector_impl_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/connector_impl_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /<>/modules/conop/src/./diag.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/./diag.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/overlay_manager.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/overlay_manager.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/dihedral.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/dihedral.hh cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./info_visitor.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_visitor.hh cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /<>/modules/conop/src/./model_check.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/./model_check.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/overlay_manager_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/overlay_manager_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./info_verbose_visitor.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_verbose_visitor.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/entity_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/entity_impl.hh cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /<>/modules/conop/src/./heuristic.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/./heuristic.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/overlay_manager_gui.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/overlay_manager_gui.hh cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /<>/modules/conop/src/./compound.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/./compound.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/entity_impl_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/entity_impl_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./item_type.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./item_type.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/overlay_manager_observer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/overlay_manager_observer.hh cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /<>/modules/conop/src/./compound_lib.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/./compound_lib.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/fragment_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/fragment_impl.hh cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./geom_info_conversion.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./geom_info_conversion.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/pointlist_overlay.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/pointlist_overlay.hh cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /<>/modules/conop/src/./module_config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/./module_config.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/fragment_impl_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/fragment_impl_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./item_type_cast.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./item_type_cast.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/pointlist_overlay_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/pointlist_overlay_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /<>/modules/conop/src/./rule_based.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/./rule_based.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/query_ast.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/query_ast.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/strategies.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/strategies.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/query_ast_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/query_ast_fw.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /<>/modules/conop/src/./minimal_compound_lib.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/./minimal_compound_lib.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/strategies_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/strategies_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/query_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/query_impl.hh [ 0%] Built target ost_info_headers make -f modules/db/src/CMakeFiles/ost_db_headers.dir/build.make modules/db/src/CMakeFiles/ost_db_headers.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/db/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/db/src /<>/obj-arm-linux-gnueabihf/modules/db/src/CMakeFiles/ost_db_headers.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /<>/modules/conop/src/./compound_lib_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/./compound_lib_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/viewer_normalizer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/viewer_normalizer.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/query_impl_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/query_impl_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /<>/modules/conop/src/./ring_finder.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/./ring_finder.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./file_browser.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./file_browser.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/db/src/CMakeFiles/ost_db_headers.dir/build.make modules/db/src/CMakeFiles/ost_db_headers.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/residue_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/residue_impl.hh make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/cmake -E copy_if_different /<>/modules/db/src/./sqlite_wrap.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/db/./sqlite_wrap.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./file_type_dialog.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./file_type_dialog.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/residue_impl_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/residue_impl_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/cmake -E copy_if_different /<>/modules/db/src/./sqlite_conv.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/db/./sqlite_conv.hh [ 0%] Built target ost_conop_headers make -f modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/build.make modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/seq/alg/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./file_viewer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./file_viewer.hh cd /<>/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/cmake -E copy_if_different /<>/modules/db/src/./module_config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/db/./module_config.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/surface_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/surface_impl.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./gl_canvas.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./gl_canvas.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/build.make modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/cmake -E copy_if_different /<>/modules/db/src/./linear_indexer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/db/./linear_indexer.hh make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./alignment_opts.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./alignment_opts.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/surface_impl_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/surface_impl_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./gl_win.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./gl_win.hh cd /<>/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/cmake -E copy_if_different /<>/modules/db/src/./binary_container.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/db/./binary_container.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./clip_alignment.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./clip_alignment.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/torsion_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/torsion_impl.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./scene_menu.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./scene_menu.hh cd /<>/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/cmake -E copy_if_different /<>/modules/db/src/./extract_data_helper.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/db/./extract_data_helper.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/torsion_impl_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/torsion_impl_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./conservation.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./conservation.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./gosty_app.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./gosty_app.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./atom_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./atom_base.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./contact_prediction_score.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./contact_prediction_score.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./admin.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./admin.hh [ 0%] Built target ost_db_headers cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./atom_handle.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./atom_handle.hh make -f modules/img/base/src/CMakeFiles/ost_img_headers.dir/build.make modules/img/base/src/CMakeFiles/ost_img_headers.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/img/base/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/img/base/src /<>/obj-arm-linux-gnueabihf/modules/img/base/src/CMakeFiles/ost_img_headers.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./contact_weight_matrix.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./contact_weight_matrix.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./module_config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./module_config.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/img/base/src/CMakeFiles/ost_img_headers.dir/build.make modules/img/base/src/CMakeFiles/ost_img_headers.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./atom_view.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./atom_view.hh make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/raster_image/raster_image.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/raster_image/raster_image.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./distance_map.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./distance_map.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./main.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./main.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./bond_handle.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./bond_handle.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/dispatch.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/dispatch.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./entropy.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./entropy.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./main_area.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./main_area.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./bond_table.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./bond_table.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/image_state.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./global_align.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./global_align.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./perspective.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./perspective.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./chain_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./chain_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./ins_del.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./ins_del.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/image_state_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./scene_selection.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./scene_selection.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./chain_handle.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./chain_handle.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./local_align.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./local_align.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/image_state_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./chain_view.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./chain_view.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./main_window.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./main_window.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./merge_pairwise_alignments.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./merge_pairwise_alignments.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/image_state_base_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_base_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./chain_type.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./chain_type.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./dock_widget.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./dock_widget.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./module_config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./module_config.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/image_state_def.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./dock_widget.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./dock_widget.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./chem_class.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./chem_class.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./pair_subst_weight_matrix.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./pair_subst_weight_matrix.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/image_state_factory.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_factory.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./thin_splitter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./thin_splitter.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./chem_type.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./chem_type.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./semiglobal_align.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./semiglobal_align.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/image_state_frequency_domain.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_frequency_domain.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./widget.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./widget.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./coord_group.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./coord_group.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./sequence_identity.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./sequence_identity.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/image_state_half_frequency_domain.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_half_frequency_domain.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./widget_geom_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./widget_geom_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./sequence_similarity.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./sequence_similarity.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./coord_source.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./coord_source.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/image_state_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./widget_pool.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./widget_pool.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./subst_weight_matrix.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./subst_weight_matrix.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./in_mem_coord_source.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./in_mem_coord_source.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/image_state_spatial_domain.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_spatial_domain.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./widget_registry.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./widget_registry.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./coord_frame.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./coord_frame.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./variance_map.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./variance_map.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./widget_state_saver.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./widget_state_saver.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/image_state_visitor.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_visitor.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./editor_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./editor_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/image_state_algorithm.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_algorithm.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./data/default_contact_weight_matrix.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./default_contact_weight_matrix.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./file_loader.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./file_loader.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./editor_type_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./editor_type_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/image_state_visitor_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_visitor_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./data/default_pair_subst_weight_matrix.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./default_pair_subst_weight_matrix.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/index.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/index.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./mol.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./mol.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./hmm_pseudo_counts.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./hmm_pseudo_counts.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/type_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/type_fw.hh [ 0%] Built target ost_gui_headers make -f modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/build.make modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/img/alg/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/img/alg/src /<>/obj-arm-linux-gnueabihf/modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./hmm_score.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./hmm_score.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./entity_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/value_holder.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/value_holder.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/build.make modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./anisotropic.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./anisotropic.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./entity_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./algorithm.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./algorithm.hh [ 0%] Built target ost_seq_alg_headers make -f modules/io/src/CMakeFiles/ost_io_headers.dir/build.make modules/io/src/CMakeFiles/ost_io_headers.dir/depend cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./auto_correlate.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./auto_correlate.hh make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/io/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/io/src /<>/obj-arm-linux-gnueabihf/modules/io/src/CMakeFiles/ost_io_headers.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./circle_mask.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./circle_mask.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./entity_handle.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_handle.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./clear.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./clear.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/io/src/CMakeFiles/ost_io_headers.dir/build.make modules/io/src/CMakeFiles/ost_io_headers.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/chemdict_parser.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/chemdict_parser.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./composite_mask.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./composite_mask.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./clip_min_max.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./clip_min_max.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./entity_observer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_observer.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/star_parser.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/star_parser.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./data_algorithm.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./data_algorithm.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./conjugate.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./conjugate.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./entity_observer_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_observer_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./data_observer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./data_observer.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./convolute.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./convolute.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/mmcif_reader.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/mmcif_reader.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./entity_property_mapper.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_property_mapper.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./data_types.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./data_types.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./correlate.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./correlate.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./entity_view.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_view.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/mmcif_info.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/mmcif_info.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./data.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./data.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./cross_correlate.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./cross_correlate.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./entity_visitor.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_visitor.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/io_profile.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/io_profile.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./debug.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./debug.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./density_slice.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./density_slice.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/dcd_io.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/dcd_io.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./entity_visitor_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_visitor_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./dllexport.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./dllexport.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./dft.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./dft.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/entity_io_crd_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/entity_io_crd_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./handle_type_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./handle_type_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./fft.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./fft.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./ics_editor.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./ics_editor.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./extent_iterator.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./extent_iterator.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/entity_io_pqr_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/entity_io_pqr_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./fftw_helper.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./fftw_helper.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./not_connected_error.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./not_connected_error.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/entity_io_mae_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/entity_io_mae_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./extent_mask.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./extent_mask.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./fill.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./fill.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./property_id.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./property_id.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/entity_io_mmcif_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/entity_io_mmcif_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./extent.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./extent.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./filter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./filter.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/entity_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/entity_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./query.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./query.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./image_factory.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_factory.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./fourier_filters.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./fourier_filters.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/pdb_reader.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/pdb_reader.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./query_error.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./query_error.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./image_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./gaussian_gradient_magnitude.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./gaussian_gradient_magnitude.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./query_state.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./query_state.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./image_handle_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_handle_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/entity_io_pdb_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/entity_io_pdb_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./gaussian.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./gaussian.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./residue_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./residue_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./image_handle.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_handle.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/pdb_writer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/pdb_writer.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./gaussian_laplacian.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./gaussian_laplacian.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./residue_handle.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./residue_handle.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./image_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_impl.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/entity_io_sdf_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/entity_io_sdf_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./residue_prop.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./residue_prop.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./highest_peak_search_3d.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./highest_peak_search_3d.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./image_list.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_list.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/sdf_reader.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/sdf_reader.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./histogram.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./histogram.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./image_state_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_state_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./residue_view.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./residue_view.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/sdf_writer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/sdf_writer.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/save_entity.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/save_entity.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./image_state.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_state.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./line_iterator.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./line_iterator.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./sec_structure.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./sec_structure.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./image.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./image.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/load_entity.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/load_entity.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./spatial_organizer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./spatial_organizer.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./local_sigma_threshold.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./local_sigma_threshold.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./inverted_mask.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./inverted_mask.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/surface_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/surface_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./surface.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./surface.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./mask_image.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./mask_image.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./map.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./map.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/load_surface.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/load_surface.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./surface_builder.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./surface_builder.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./negate.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./negate.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/surface_io_msms_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/surface_io_msms_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./mask_base_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./mask_base_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./builder.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./builder.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./normalizer_factory.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./normalizer_factory.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/pdb_str.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/pdb_str.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./mask_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./mask_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./norm.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./norm.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./surface_handle.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./surface_handle.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/sdf_str.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/sdf_str.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./mask_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./mask_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./normalizer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./normalizer.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/mmcif_str.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/mmcif_str.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./surface_prop.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./surface_prop.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./mask_visitor.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./mask_visitor.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/stereochemical_params_reader.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/stereochemical_params_reader.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./norm_linear.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./norm_linear.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./torsion_handle.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./torsion_handle.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./mask.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./mask.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./norm_log.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./norm_log.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/omf.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/omf.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./transfer_connectivity.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./transfer_connectivity.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./module_config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./module_config.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./norm_od.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./norm_od.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/load_map.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/load_map.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./query_view_wrapper.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./query_view_wrapper.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/map_io_df3_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_df3_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./normalizer_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./normalizer_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./power_spectrum.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./power_spectrum.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./view_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./view_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/image_format.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/image_format.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./normalizer_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./normalizer_impl.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./randomize.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./randomize.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./view_type_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./view_type_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/map_io_dx_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_dx_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./null_data.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./null_data.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./smooth_mask_image.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./smooth_mask_image.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./view_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./view_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/map_io_spi_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_spi_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./observable.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./observable.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./stat.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./stat.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./xcs_editor.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./xcs_editor.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/map_io_situs_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_situs_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./paste_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./paste_impl.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./stat_accumulator.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./stat_accumulator.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./bounding_box.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./bounding_box.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/map_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./peak.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./peak.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./transform.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./transform.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./stat_min_max.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./stat_min_max.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/map_io_mrc_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_mrc_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./phase.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./phase.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./module_config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./module_config.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./threshold.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./threshold.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/map_io_dat_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_dat_handler.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./physical_units.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./physical_units.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./transcendentals.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./transcendentals.hh [ 0%] Built target ost_mol_headers make -f modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/build.make modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/depend cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/map_io_ipl_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_ipl_handler.hh make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/mol/alg/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./pixel_sampling.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./pixel_sampling.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./transform.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./transform.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/map_io_jpk_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_jpk_handler.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/build.make modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./point_list.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./point_list.hh make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./svd_superpose.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./svd_superpose.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./transform_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./transform_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/map_io_nanoscope_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_nanoscope_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./module_config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./module_config.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./point.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./point.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/map_io_png_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_png_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./alg_transform.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./alg_transform.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./sec_structure_segments.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./sec_structure_segments.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./polygon_mask.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./polygon_mask.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/map_io_dm3_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_dm3_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./progress.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./progress.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./local_dist_diff_test.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./local_dist_diff_test.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./alg_mirror.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./alg_mirror.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/map_io_tiff_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_tiff_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./size.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./size.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./distance_test_common.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./distance_test_common.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./alg_shift.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./alg_shift.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/tiff_util.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/tiff_util.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./spherical_mask.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./spherical_mask.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./distance_rmsd_test.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./distance_rmsd_test.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./discrete_shrink.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./discrete_shrink.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/jpk_util.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/jpk_util.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./util.cc /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./util.cc cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./superpose_frames.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./superpose_frames.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./util.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./util.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./filter_clashes.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./filter_clashes.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./transformation_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./transformation_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/seq/sequence_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./value_util.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./value_util.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./construct_cbeta.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./construct_cbeta.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./transformations.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./transformations.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/seq/fasta_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/fasta_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./vecmat.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./vecmat.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./fractional_shift.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./fractional_shift.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./clash_score.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./clash_score.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/seq/pir_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/pir_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./mask_info_convert.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./mask_info_convert.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./module_config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./module_config.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./trajectory_analysis.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./trajectory_analysis.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./polar.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./polar.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/seq/promod_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/promod_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./structure_analysis.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./structure_analysis.hh [ 0%] Built target ost_img_headers make -f modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/build.make modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/depend cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./line_average.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./line_average.hh make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/gfx/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/gfx/src /<>/obj-arm-linux-gnueabihf/modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/seq/profile_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/profile_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./rscrosscorr.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./rscrosscorr.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./consistency_checks.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./consistency_checks.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/seq/hhm_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/hhm_io_handler.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/build.make modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/build make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./pdbize.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./pdbize.hh make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/map_iso_gen.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/map_iso_gen.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/seq/pssm_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/pssm_io_handler.hh [ 0%] Built target ost_img_alg_headers cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/seq/clustal_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/clustal_io_handler.hh make -f modules/config/CMakeFiles/ost_config.dir/build.make modules/config/CMakeFiles/ost_config.dir/depend cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/map_iso_gen_s.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/map_iso_gen_s.hh make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/config /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/config /<>/obj-arm-linux-gnueabihf/modules/config/CMakeFiles/ost_config.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/map_iso_gen_s.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/map_iso_gen_s.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/seq/load.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/load.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./adjacency_bitmap.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./adjacency_bitmap.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/config/CMakeFiles/ost_config.dir/build.make modules/config/CMakeFiles/ost_config.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/map_iso_spec.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/map_iso_spec.hh make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[3]: Nothing to be done for 'modules/config/CMakeFiles/ost_config.dir/build'. make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/seq/save.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/save.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./consistency_checks.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./consistency_checks.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/map_octree.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/map_octree.hh [ 0%] Built target ost_config cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./binary_data_sink.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./binary_data_sink.hh make -f modules/geom/src/CMakeFiles/ost_geom.dir/build.make modules/geom/src/CMakeFiles/ost_geom.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/geom/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/geom/src /<>/obj-arm-linux-gnueabihf/modules/geom/src/CMakeFiles/ost_geom.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./contact_overlap.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./contact_overlap.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./io_manager.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./io_manager.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/octree_isocont.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/octree_isocont.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/geom/src/CMakeFiles/ost_geom.dir/build.make modules/geom/src/CMakeFiles/ost_geom.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./domain_find.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./domain_find.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/cartoon_renderer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/cartoon_renderer.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./binary_data_source.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./binary_data_source.hh [ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/mat2.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./similarity_matrix.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./similarity_matrix.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/mat2.cc.o -MF CMakeFiles/ost_geom.dir/mat2.cc.o.d -o CMakeFiles/ost_geom.dir/mat2.cc.o -c /<>/modules/geom/src/mat2.cc cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./module_config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./module_config.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/custom_renderer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/custom_renderer.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./container_serialization.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./container_serialization.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./accessibility.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./accessibility.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/cpk_renderer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/cpk_renderer.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./swap_util.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./swap_util.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./sec_struct.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./sec_struct.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/debug_renderer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/debug_renderer.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./nonstandard.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./nonstandard.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/simple_renderer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/simple_renderer.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./io_utils.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./io_utils.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./molck.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./molck.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/sline_renderer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/sline_renderer.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./io_exception.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./io_exception.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/trace_renderer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/trace_renderer.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./convert.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./convert.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./find_membrane.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./find_membrane.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/line_trace_renderer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/line_trace_renderer.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./converting_streams.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./converting_streams.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/backbone_trace.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/backbone_trace.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./entity_to_density.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./entity_to_density.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./formatted_line.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./formatted_line.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/entity_detail.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_detail.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/chemdict_parser.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./chemdict_parser.hh [ 1%] Built target ost_mol_alg_headers cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/entity_renderer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_renderer.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/star_parser.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./star_parser.hh [ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/mat3.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/mat3.cc.o -MF CMakeFiles/ost_geom.dir/mat3.cc.o.d -o CMakeFiles/ost_geom.dir/mat3.cc.o -c /<>/modules/geom/src/mat3.cc cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/trace_renderer_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/trace_renderer_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/mmcif_reader.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./mmcif_reader.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/connect_renderer_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/connect_renderer_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/mmcif_info.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./mmcif_info.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/mapped_property.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/mapped_property.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/io_profile.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./io_profile.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/entity_renderer_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_renderer_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/dcd_io.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./dcd_io.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/tabulated_trig.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/tabulated_trig.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/entity_io_crd_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./entity_io_crd_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/fast_spheres.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/fast_spheres.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/entity_io_pqr_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./entity_io_pqr_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/render_options/render_options.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/render_options.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/render_options/line_render_options.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/line_render_options.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/entity_io_mae_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./entity_io_mae_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/render_options/custom_render_options.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/custom_render_options.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/entity_io_mmcif_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./entity_io_mmcif_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/render_options/cpk_render_options.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/cpk_render_options.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/render_options/simple_render_options.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/simple_render_options.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/entity_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./entity_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/pdb_reader.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./pdb_reader.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/render_options/sline_render_options.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/sline_render_options.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/entity_io_pdb_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./entity_io_pdb_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/render_options/line_trace_render_options.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/line_trace_render_options.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/pdb_writer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./pdb_writer.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/render_options/cartoon_render_options.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/cartoon_render_options.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/entity_io_sdf_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./entity_io_sdf_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/render_options/trace_render_options.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/trace_render_options.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/sdf_reader.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./sdf_reader.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/color_ops/color_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/color_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/sdf_writer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./sdf_writer.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/color_ops/by_element_color_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/by_element_color_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/save_entity.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./save_entity.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/color_ops/by_chain_color_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/by_chain_color_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/load_entity.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./load_entity.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/color_ops/uniform_color_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/uniform_color_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/surface_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./surface_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/color_ops/gradient_color_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/gradient_color_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/load_surface.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./load_surface.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/color_ops/entity_view_color_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/entity_view_color_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/surface_io_msms_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./surface_io_msms_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/color_ops/basic_gradient_color_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/basic_gradient_color_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/pdb_str.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./pdb_str.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/color_ops/gradient_level_color_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/gradient_level_color_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/color_ops/map_handle_color_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/map_handle_color_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/sdf_str.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./sdf_str.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./render_pass.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./render_pass.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/mmcif_str.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./mmcif_str.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./bitmap_io.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./bitmap_io.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/stereochemical_params_reader.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./stereochemical_params_reader.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./collada_exporter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./collada_exporter.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./color.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./color.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/omf.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./omf.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./entity.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./entity.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./seq/sequence_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./sequence_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./seq/fasta_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./fasta_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./entity_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./entity_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./seq/pir_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./pir_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gl_helper.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gl_helper.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gfx.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./seq/promod_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./promod_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gfx_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./seq/profile_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./profile_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gfx_node.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_node.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./seq/hhm_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./hhm_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gfx_node_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_node_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./seq/pssm_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./pssm_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gfx_node_visitor.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_node_visitor.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./seq/clustal_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./clustal_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gfx_object_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_object_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./seq/load.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./load.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gfx_object.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_object.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./seq/save.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./save.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gfx_object_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_object_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/load_map.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./load_map.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/map_io_df3_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_df3_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gfx_prim.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_prim.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/image_format.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./image_format.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./symmetry_node.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./symmetry_node.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/map_io_dx_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_dx_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gfx_test_object.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_test_object.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./glwin_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./glwin_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/map_io_spi_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_spi_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./input.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./input.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/map_io_situs_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_situs_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./prim_list.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./prim_list.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/map_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./scene.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./scene.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/map_io_mrc_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_mrc_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./selection.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./selection.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/map_io_dat_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_dat_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./surface.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./surface.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/map_io_ipl_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_ipl_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./texture.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./texture.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/map_io_jpk_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_jpk_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./vertex_array.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./vertex_array.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/map_io_nanoscope_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_nanoscope_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./vertex_array_helper.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./vertex_array_helper.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/map_io_png_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_png_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./scene_observer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./scene_observer.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/map_io_dm3_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_dm3_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gl_include.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gl_include.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/map_io_tiff_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_tiff_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./glext_include.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./glext_include.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/tiff_util.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./tiff_util.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./render_mode.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./render_mode.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/jpk_util.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./jpk_util.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./material.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./material.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gradient.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gradient.hh [ 1%] Built target ost_io_headers cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gradient_manager.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gradient_manager.hh [ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/mat4.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/mat4.cc.o -MF CMakeFiles/ost_geom.dir/mat4.cc.o.d -o CMakeFiles/ost_geom.dir/mat4.cc.o -c /<>/modules/geom/src/mat4.cc cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./module_config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./module_config.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./primitives.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./primitives.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./povray_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./povray_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./povray.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./povray.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./exporter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./exporter.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./exporter_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./exporter_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gost_exporter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gost_exporter.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./color_ops/map_handle_color_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./map_handle_color_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./map_iso.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./map_iso.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./map_slab.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./map_slab.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./map_iso_prop.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./map_iso_prop.hh make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 1%] Built target ost_gfx_headers [ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/vec3.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/vec3.cc.o -MF CMakeFiles/ost_geom.dir/vec3.cc.o.d -o CMakeFiles/ost_geom.dir/vec3.cc.o -c /<>/modules/geom/src/vec3.cc [ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/vecmat2_op.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/vecmat2_op.cc.o -MF CMakeFiles/ost_geom.dir/vecmat2_op.cc.o.d -o CMakeFiles/ost_geom.dir/vecmat2_op.cc.o -c /<>/modules/geom/src/vecmat2_op.cc [ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/vecmat3_op.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/vecmat3_op.cc.o -MF CMakeFiles/ost_geom.dir/vecmat3_op.cc.o.d -o CMakeFiles/ost_geom.dir/vecmat3_op.cc.o -c /<>/modules/geom/src/vecmat3_op.cc [ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/vecmat4_op.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/vecmat4_op.cc.o -MF CMakeFiles/ost_geom.dir/vecmat4_op.cc.o.d -o CMakeFiles/ost_geom.dir/vecmat4_op.cc.o -c /<>/modules/geom/src/vecmat4_op.cc [ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/composite2.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/composite2.cc.o -MF CMakeFiles/ost_geom.dir/composite2.cc.o.d -o CMakeFiles/ost_geom.dir/composite2.cc.o -c /<>/modules/geom/src/composite2.cc [ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/composite3.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/composite3.cc.o -MF CMakeFiles/ost_geom.dir/composite3.cc.o.d -o CMakeFiles/ost_geom.dir/composite3.cc.o -c /<>/modules/geom/src/composite3.cc In file included from /<>/modules/geom/src/composite2.hh:27, from /<>/modules/geom/src/composite2.cc:23: /<>/modules/geom/src/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/modules/geom/src/def.hh:26, from /<>/modules/geom/src/composite2.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/modules/geom/src/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/composite2_op.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/composite2_op.cc.o -MF CMakeFiles/ost_geom.dir/composite2_op.cc.o.d -o CMakeFiles/ost_geom.dir/composite2_op.cc.o -c /<>/modules/geom/src/composite2_op.cc [ 1%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/composite3_op.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/composite3_op.cc.o -MF CMakeFiles/ost_geom.dir/composite3_op.cc.o.d -o CMakeFiles/ost_geom.dir/composite3_op.cc.o -c /<>/modules/geom/src/composite3_op.cc /<>/modules/geom/src/composite3.cc: In member function ‘geom::Quat geom::Rotation3::GetQuat() const’: /<>/modules/geom/src/composite3.cc:218:27: note: parameter passing for argument of type ‘geom::Quat’ when C++17 is enabled changed to match C++14 in GCC 10.1 218 | Quat Rotation3::GetQuat() const | ^~~~~ [ 2%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/quat.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/quat.cc.o -MF CMakeFiles/ost_geom.dir/quat.cc.o.d -o CMakeFiles/ost_geom.dir/quat.cc.o -c /<>/modules/geom/src/quat.cc In file included from /<>/modules/geom/src/composite2.hh:27, from /<>/modules/geom/src/composite2_op.hh:24, from /<>/modules/geom/src/composite2_op.cc:24: /<>/modules/geom/src/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/modules/geom/src/composite2_op.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/modules/geom/src/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 2%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/transform.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/transform.cc.o -MF CMakeFiles/ost_geom.dir/transform.cc.o.d -o CMakeFiles/ost_geom.dir/transform.cc.o -c /<>/modules/geom/src/transform.cc [ 2%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/aligned_cuboid.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/aligned_cuboid.cc.o -MF CMakeFiles/ost_geom.dir/aligned_cuboid.cc.o.d -o CMakeFiles/ost_geom.dir/aligned_cuboid.cc.o -c /<>/modules/geom/src/aligned_cuboid.cc [ 2%] Building CXX object modules/geom/src/CMakeFiles/ost_geom.dir/point_cloud.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GEOM -Dost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/src/CMakeFiles/ost_geom.dir/point_cloud.cc.o -MF CMakeFiles/ost_geom.dir/point_cloud.cc.o.d -o CMakeFiles/ost_geom.dir/point_cloud.cc.o -c /<>/modules/geom/src/point_cloud.cc /<>/modules/geom/src/quat.cc: In function ‘geom::Quat geom::{anonymous}::extract_from_rotmat(const geom::Mat3&)’: /<>/modules/geom/src/quat.cc:185:41: note: parameter passing for argument of type ‘geom::Quat’ when C++17 is enabled changed to match C++14 in GCC 10.1 185 | Quat extract_from_rotmat(const Mat3& rot) | ^ [ 2%] Linking CXX shared library ../../../stage/lib/libost_geom.so cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_geom.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro -shared -Wl,-soname,libost_geom.so.2.5 -o ../../../stage/lib/libost_geom.so.2.5.0 CMakeFiles/ost_geom.dir/mat2.cc.o CMakeFiles/ost_geom.dir/mat3.cc.o CMakeFiles/ost_geom.dir/mat4.cc.o CMakeFiles/ost_geom.dir/vec3.cc.o CMakeFiles/ost_geom.dir/vecmat2_op.cc.o CMakeFiles/ost_geom.dir/vecmat3_op.cc.o CMakeFiles/ost_geom.dir/vecmat4_op.cc.o CMakeFiles/ost_geom.dir/composite2.cc.o CMakeFiles/ost_geom.dir/composite3.cc.o CMakeFiles/ost_geom.dir/composite2_op.cc.o CMakeFiles/ost_geom.dir/composite3_op.cc.o CMakeFiles/ost_geom.dir/quat.cc.o CMakeFiles/ost_geom.dir/transform.cc.o CMakeFiles/ost_geom.dir/aligned_cuboid.cc.o CMakeFiles/ost_geom.dir/point_cloud.cc.o -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E cmake_symlink_library ../../../stage/lib/libost_geom.so.2.5.0 ../../../stage/lib/libost_geom.so.2.5 ../../../stage/lib/libost_geom.so make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 2%] Built target ost_geom make -f modules/base/src/CMakeFiles/ost_base.dir/build.make modules/base/src/CMakeFiles/ost_base.dir/depend make -f modules/geom/pymod/CMakeFiles/_ost_geom.dir/build.make modules/geom/pymod/CMakeFiles/_ost_geom.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/base/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/base/src /<>/obj-arm-linux-gnueabihf/modules/base/src/CMakeFiles/ost_base.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/geom/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/geom/pymod /<>/obj-arm-linux-gnueabihf/modules/geom/pymod/CMakeFiles/_ost_geom.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/base/src/CMakeFiles/ost_base.dir/build.make modules/base/src/CMakeFiles/ost_base.dir/build make -f modules/geom/pymod/CMakeFiles/_ost_geom.dir/build.make modules/geom/pymod/CMakeFiles/_ost_geom.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 2%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vec2.cc.o [ 2%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/log.cc.o [ 2%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/generic_property.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/src/CMakeFiles/ost_base.dir/log.cc.o -MF CMakeFiles/ost_base.dir/log.cc.o.d -o CMakeFiles/ost_base.dir/log.cc.o -c /<>/modules/base/src/log.cc cd /<>/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -D_ost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vec2.cc.o -MF CMakeFiles/_ost_geom.dir/export_vec2.cc.o.d -o CMakeFiles/_ost_geom.dir/export_vec2.cc.o -c /<>/modules/geom/pymod/export_vec2.cc cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/src/CMakeFiles/ost_base.dir/generic_property.cc.o -MF CMakeFiles/ost_base.dir/generic_property.cc.o.d -o CMakeFiles/ost_base.dir/generic_property.cc.o -c /<>/modules/base/src/generic_property.cc [ 2%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vecmat2_op.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -D_ost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vecmat2_op.cc.o -MF CMakeFiles/_ost_geom.dir/export_vecmat2_op.cc.o.d -o CMakeFiles/_ost_geom.dir/export_vecmat2_op.cc.o -c /<>/modules/geom/pymod/export_vecmat2_op.cc [ 2%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/log_sink.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/src/CMakeFiles/ost_base.dir/log_sink.cc.o -MF CMakeFiles/ost_base.dir/log_sink.cc.o.d -o CMakeFiles/ost_base.dir/log_sink.cc.o -c /<>/modules/base/src/log_sink.cc [ 2%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/profile.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/src/CMakeFiles/ost_base.dir/profile.cc.o -MF CMakeFiles/ost_base.dir/profile.cc.o.d -o CMakeFiles/ost_base.dir/profile.cc.o -c /<>/modules/base/src/profile.cc [ 3%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/units.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/src/CMakeFiles/ost_base.dir/units.cc.o -MF CMakeFiles/ost_base.dir/units.cc.o.d -o CMakeFiles/ost_base.dir/units.cc.o -c /<>/modules/base/src/units.cc [ 3%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/string_ref.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/src/CMakeFiles/ost_base.dir/string_ref.cc.o -MF CMakeFiles/ost_base.dir/string_ref.cc.o.d -o CMakeFiles/ost_base.dir/string_ref.cc.o -c /<>/modules/base/src/string_ref.cc [ 3%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/platform.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/src/CMakeFiles/ost_base.dir/platform.cc.o -MF CMakeFiles/ost_base.dir/platform.cc.o.d -o CMakeFiles/ost_base.dir/platform.cc.o -c /<>/modules/base/src/platform.cc [ 3%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/message.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/src/CMakeFiles/ost_base.dir/message.cc.o -MF CMakeFiles/ost_base.dir/message.cc.o.d -o CMakeFiles/ost_base.dir/message.cc.o -c /<>/modules/base/src/message.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/geom/pymod/export_vecmat2_op.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/geom/pymod/export_vecmat2_op.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/geom/pymod/export_vec2.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/geom/pymod/export_vec2.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 3%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/test_utils/compare_files.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/src/CMakeFiles/ost_base.dir/test_utils/compare_files.cc.o -MF CMakeFiles/ost_base.dir/test_utils/compare_files.cc.o.d -o CMakeFiles/ost_base.dir/test_utils/compare_files.cc.o -c /<>/modules/base/src/test_utils/compare_files.cc [ 3%] Building CXX object modules/base/src/CMakeFiles/ost_base.dir/boost_filesystem_helper.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_BASE -Dost_base_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/src/CMakeFiles/ost_base.dir/boost_filesystem_helper.cc.o -MF CMakeFiles/ost_base.dir/boost_filesystem_helper.cc.o.d -o CMakeFiles/ost_base.dir/boost_filesystem_helper.cc.o -c /<>/modules/base/src/boost_filesystem_helper.cc [ 3%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vec3.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -D_ost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vec3.cc.o -MF CMakeFiles/_ost_geom.dir/export_vec3.cc.o.d -o CMakeFiles/_ost_geom.dir/export_vec3.cc.o -c /<>/modules/geom/pymod/export_vec3.cc [ 3%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vecmat3_op.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -D_ost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vecmat3_op.cc.o -MF CMakeFiles/_ost_geom.dir/export_vecmat3_op.cc.o.d -o CMakeFiles/_ost_geom.dir/export_vecmat3_op.cc.o -c /<>/modules/geom/pymod/export_vecmat3_op.cc [ 3%] Linking CXX shared library ../../../stage/lib/libost_base.so cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_base.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro -shared -Wl,-soname,libost_base.so.2.5 -o ../../../stage/lib/libost_base.so.2.5.0 CMakeFiles/ost_base.dir/generic_property.cc.o CMakeFiles/ost_base.dir/log.cc.o CMakeFiles/ost_base.dir/log_sink.cc.o CMakeFiles/ost_base.dir/profile.cc.o CMakeFiles/ost_base.dir/units.cc.o CMakeFiles/ost_base.dir/string_ref.cc.o CMakeFiles/ost_base.dir/platform.cc.o CMakeFiles/ost_base.dir/message.cc.o CMakeFiles/ost_base.dir/test_utils/compare_files.cc.o CMakeFiles/ost_base.dir/boost_filesystem_helper.cc.o -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E cmake_symlink_library ../../../stage/lib/libost_base.so.2.5.0 ../../../stage/lib/libost_base.so.2.5 ../../../stage/lib/libost_base.so make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 3%] Built target ost_base make -f modules/info/src/CMakeFiles/ost_info.dir/build.make modules/info/src/CMakeFiles/ost_info.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/info/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/info/src /<>/obj-arm-linux-gnueabihf/modules/info/src/CMakeFiles/ost_info.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/info/src/CMakeFiles/ost_info.dir/build.make modules/info/src/CMakeFiles/ost_info.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 3%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_impl.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/info/src/CMakeFiles/ost_info.dir/info_impl.cc.o -MF CMakeFiles/ost_info.dir/info_impl.cc.o.d -o CMakeFiles/ost_info.dir/info_impl.cc.o -c /<>/modules/info/src/info_impl.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/info/src/info_impl.hh:41, from /<>/modules/info/src/info_impl.cc:37: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/info/src/info_impl.cc:27: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/geom/pymod/export_vec3.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/geom/pymod/export_vec3.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/geom/pymod/export_vecmat3_op.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/geom/pymod/export_vecmat3_op.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 3%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vec4.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -D_ost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vec4.cc.o -MF CMakeFiles/_ost_geom.dir/export_vec4.cc.o.d -o CMakeFiles/_ost_geom.dir/export_vec4.cc.o -c /<>/modules/geom/pymod/export_vec4.cc [ 3%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vecmat4_op.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -D_ost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_vecmat4_op.cc.o -MF CMakeFiles/_ost_geom.dir/export_vecmat4_op.cc.o.d -o CMakeFiles/_ost_geom.dir/export_vecmat4_op.cc.o -c /<>/modules/geom/pymod/export_vecmat4_op.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/geom/pymod/export_vec4.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/geom/pymod/export_vec4.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/geom/pymod/export_vecmat4_op.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/geom/pymod/export_vecmat4_op.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 3%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/wrap_geom.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -D_ost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/wrap_geom.cc.o -MF CMakeFiles/_ost_geom.dir/wrap_geom.cc.o.d -o CMakeFiles/_ost_geom.dir/wrap_geom.cc.o -c /<>/modules/geom/pymod/wrap_geom.cc [ 3%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_mat2.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -D_ost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_mat2.cc.o -MF CMakeFiles/_ost_geom.dir/export_mat2.cc.o.d -o CMakeFiles/_ost_geom.dir/export_mat2.cc.o -c /<>/modules/geom/pymod/export_mat2.cc [ 3%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_mat3.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -D_ost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_mat3.cc.o -MF CMakeFiles/_ost_geom.dir/export_mat3.cc.o.d -o CMakeFiles/_ost_geom.dir/export_mat3.cc.o -c /<>/modules/geom/pymod/export_mat3.cc [ 5%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_handle.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/info/src/CMakeFiles/ost_info.dir/info_handle.cc.o -MF CMakeFiles/ost_info.dir/info_handle.cc.o.d -o CMakeFiles/ost_info.dir/info_handle.cc.o -c /<>/modules/info/src/info_handle.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/geom/pymod/export_mat2.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/geom/pymod/export_mat2.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/geom/pymod/wrap_geom.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/geom/pymod/wrap_geom.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/info/src/info_group.hh:33, from /<>/modules/info/src/info.hh:32, from /<>/modules/info/src/info_handle.cc:30: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/info/src/info_handle.cc:27: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/geom/pymod/export_mat3.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/geom/pymod/export_mat3.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 5%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_mat4.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -D_ost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_mat4.cc.o -MF CMakeFiles/_ost_geom.dir/export_mat4.cc.o.d -o CMakeFiles/_ost_geom.dir/export_mat4.cc.o -c /<>/modules/geom/pymod/export_mat4.cc [ 5%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_group.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/info/src/CMakeFiles/ost_info.dir/info_group.cc.o -MF CMakeFiles/ost_info.dir/info_group.cc.o.d -o CMakeFiles/ost_info.dir/info_group.cc.o -c /<>/modules/info/src/info_group.cc [ 6%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_composite2.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -D_ost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_composite2.cc.o -MF CMakeFiles/_ost_geom.dir/export_composite2.cc.o.d -o CMakeFiles/_ost_geom.dir/export_composite2.cc.o -c /<>/modules/geom/pymod/export_composite2.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/info/src/info_group.hh:33, from /<>/modules/info/src/info.hh:32, from /<>/modules/info/src/info_group.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/modules/info/src/info_handle.hh:31, from /<>/modules/info/src/info.hh:31: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 6%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_composite3.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -D_ost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_composite3.cc.o -MF CMakeFiles/_ost_geom.dir/export_composite3.cc.o.d -o CMakeFiles/_ost_geom.dir/export_composite3.cc.o -c /<>/modules/geom/pymod/export_composite3.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/geom/pymod/export_mat4.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/geom/pymod/export_mat4.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 6%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_item.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/info/src/CMakeFiles/ost_info.dir/info_item.cc.o -MF CMakeFiles/ost_info.dir/info_item.cc.o.d -o CMakeFiles/ost_info.dir/info_item.cc.o -c /<>/modules/info/src/info_item.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/geom/pymod/export_composite2.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/geom/pymod/export_composite2.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/geom/pymod/export_composite3.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/geom/pymod/export_composite3.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/info/src/info_group.hh:33, from /<>/modules/info/src/info.hh:32, from /<>/modules/info/src/info_item.cc:31: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/info/src/info_item.cc:27: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 6%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_path.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/info/src/CMakeFiles/ost_info.dir/info_path.cc.o -MF CMakeFiles/ost_info.dir/info_path.cc.o.d -o CMakeFiles/ost_info.dir/info_path.cc.o -c /<>/modules/info/src/info_path.cc In file included from /usr/include/boost/preprocessor/iteration/detail/iter/limits/forward1_256.hpp:14, from /usr/include/boost/preprocessor/iteration/detail/iter/forward1.hpp:1343, from /usr/include/boost/python/detail/invoke.hpp:61, from /usr/include/boost/python/detail/caller.hpp:16, from /usr/include/boost/python/object/function_handle.hpp:8, from /usr/include/boost/python/converter/arg_to_python.hpp:19, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22: /usr/include/boost/python/detail/invoke.hpp: In function ‘PyObject* boost::python::detail::invoke(invoke_tag_, const RC&, F&, TC&) [with RC = boost::python::to_python_value; F = geom::Quat (geom::Rotation3::*)() const; TC = boost::python::arg_from_python]’: /usr/include/boost/python/detail/invoke.hpp:86:25: note: parameter passing for argument of type ‘geom::Quat’ when C++17 is enabled changed to match C++14 in GCC 10.1 86 | return rc( (tc().*f)(BOOST_PP_ENUM_BINARY_PARAMS_Z(1, N, ac, () BOOST_PP_INTERCEPT)) ); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 6%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_composite2_op.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -D_ost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_composite2_op.cc.o -MF CMakeFiles/_ost_geom.dir/export_composite2_op.cc.o.d -o CMakeFiles/_ost_geom.dir/export_composite2_op.cc.o -c /<>/modules/geom/pymod/export_composite2_op.cc [ 6%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_set.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/info/src/CMakeFiles/ost_info.dir/info_set.cc.o -MF CMakeFiles/ost_info.dir/info_set.cc.o.d -o CMakeFiles/ost_info.dir/info_set.cc.o -c /<>/modules/info/src/info_set.cc [ 6%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_composite3_op.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -D_ost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_composite3_op.cc.o -MF CMakeFiles/_ost_geom.dir/export_composite3_op.cc.o.d -o CMakeFiles/_ost_geom.dir/export_composite3_op.cc.o -c /<>/modules/geom/pymod/export_composite3_op.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/info/src/info_group.hh:33, from /<>/modules/info/src/info_set.hh:29, from /<>/modules/info/src/info_set.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/info/src/info_set.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/geom/pymod/export_composite2_op.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/geom/pymod/export_composite2_op.cc:21: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 6%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_quat.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -D_ost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_quat.cc.o -MF CMakeFiles/_ost_geom.dir/export_quat.cc.o.d -o CMakeFiles/_ost_geom.dir/export_quat.cc.o -c /<>/modules/geom/pymod/export_quat.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/geom/pymod/export_composite3_op.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/geom/pymod/export_composite3_op.cc:21: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 6%] Building CXX object modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_transform.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -D_ost_geom_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/geom/pymod/CMakeFiles/_ost_geom.dir/export_transform.cc.o -MF CMakeFiles/_ost_geom.dir/export_transform.cc.o.d -o CMakeFiles/_ost_geom.dir/export_transform.cc.o -c /<>/modules/geom/pymod/export_transform.cc [ 6%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_visitor.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/info/src/CMakeFiles/ost_info.dir/info_visitor.cc.o -MF CMakeFiles/ost_info.dir/info_visitor.cc.o.d -o CMakeFiles/ost_info.dir/info_visitor.cc.o -c /<>/modules/info/src/info_visitor.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/geom/pymod/export_quat.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/geom/pymod/export_quat.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/modules/geom/pymod/export_quat.cc: In function ‘geom::Quat normalize(const geom::Quat&)’: /<>/modules/geom/pymod/export_quat.cc:24:42: note: parameter passing for argument of type ‘geom::Quat’ when C++17 is enabled changed to match C++14 in GCC 10.1 24 | geom::Quat normalize (const geom::Quat& q) | ^ [ 6%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/geom_info_conversion.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/info/src/CMakeFiles/ost_info.dir/geom_info_conversion.cc.o -MF CMakeFiles/ost_info.dir/geom_info_conversion.cc.o.d -o CMakeFiles/ost_info.dir/geom_info_conversion.cc.o -c /<>/modules/info/src/geom_info_conversion.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info_group.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:32, from /<>/modules/info/src/geom_info_conversion.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info_handle.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:31: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 6%] Building CXX object modules/info/src/CMakeFiles/ost_info.dir/info_verbose_visitor.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_INFO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_info_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/info/src/CMakeFiles/ost_info.dir/info_verbose_visitor.cc.o -MF CMakeFiles/ost_info.dir/info_verbose_visitor.cc.o.d -o CMakeFiles/ost_info.dir/info_verbose_visitor.cc.o -c /<>/modules/info/src/info_verbose_visitor.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/info/src/info_group.hh:33, from /<>/modules/info/src/info_verbose_visitor.cc:28: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/info/src/info_verbose_visitor.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 6%] Linking CXX shared module ../../../stage/lib/python3.12/dist-packages/ost/geom/_ost_geom.so cd /<>/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_geom.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro -shared -o ../../../stage/lib/python3.12/dist-packages/ost/geom/_ost_geom.so CMakeFiles/_ost_geom.dir/export_vec2.cc.o CMakeFiles/_ost_geom.dir/export_vecmat2_op.cc.o CMakeFiles/_ost_geom.dir/export_vec3.cc.o CMakeFiles/_ost_geom.dir/export_vecmat3_op.cc.o CMakeFiles/_ost_geom.dir/export_vec4.cc.o CMakeFiles/_ost_geom.dir/export_vecmat4_op.cc.o CMakeFiles/_ost_geom.dir/wrap_geom.cc.o CMakeFiles/_ost_geom.dir/export_mat2.cc.o CMakeFiles/_ost_geom.dir/export_mat3.cc.o CMakeFiles/_ost_geom.dir/export_mat4.cc.o CMakeFiles/_ost_geom.dir/export_composite2.cc.o CMakeFiles/_ost_geom.dir/export_composite3.cc.o CMakeFiles/_ost_geom.dir/export_composite2_op.cc.o CMakeFiles/_ost_geom.dir/export_composite3_op.cc.o CMakeFiles/_ost_geom.dir/export_quat.cc.o CMakeFiles/_ost_geom.dir/export_transform.cc.o -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 [ 6%] Linking CXX shared library ../../../stage/lib/libost_info.so cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_info.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro -shared -Wl,-soname,libost_info.so.2.5 -o ../../../stage/lib/libost_info.so.2.5.0 CMakeFiles/ost_info.dir/info_impl.cc.o CMakeFiles/ost_info.dir/info_handle.cc.o CMakeFiles/ost_info.dir/info_group.cc.o CMakeFiles/ost_info.dir/info_item.cc.o CMakeFiles/ost_info.dir/info_path.cc.o CMakeFiles/ost_info.dir/info_set.cc.o CMakeFiles/ost_info.dir/info_visitor.cc.o CMakeFiles/ost_info.dir/geom_info_conversion.cc.o CMakeFiles/ost_info.dir/info_verbose_visitor.cc.o -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 ../../../stage/lib/libost_base.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 ../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E cmake_symlink_library ../../../stage/lib/libost_info.so.2.5.0 ../../../stage/lib/libost_info.so.2.5 ../../../stage/lib/libost_info.so make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 6%] Built target ost_info make -f modules/mol/base/src/CMakeFiles/ost_mol.dir/build.make modules/mol/base/src/CMakeFiles/ost_mol.dir/depend make -f modules/img/base/src/CMakeFiles/ost_img.dir/build.make modules/img/base/src/CMakeFiles/ost_img.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/img/base/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/img/base/src /<>/obj-arm-linux-gnueabihf/modules/img/base/src/CMakeFiles/ost_img.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/mol/base/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/mol/base/src /<>/obj-arm-linux-gnueabihf/modules/mol/base/src/CMakeFiles/ost_mol.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/mol/base/src/CMakeFiles/ost_mol.dir/build.make modules/mol/base/src/CMakeFiles/ost_mol.dir/build make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/img/base/src/CMakeFiles/ost_img.dir/build.make modules/img/base/src/CMakeFiles/ost_img.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 6%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/atom_base.cc.o [ 6%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/atom_handle.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/atom_handle.cc.o -MF CMakeFiles/ost_mol.dir/atom_handle.cc.o.d -o CMakeFiles/ost_mol.dir/atom_handle.cc.o -c /<>/modules/mol/base/src/atom_handle.cc [ 6%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/circle_mask.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/atom_base.cc.o -MF CMakeFiles/ost_mol.dir/atom_base.cc.o.d -o CMakeFiles/ost_mol.dir/atom_base.cc.o -c /<>/modules/mol/base/src/atom_base.cc cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/circle_mask.cc.o -MF CMakeFiles/ost_img.dir/circle_mask.cc.o.d -o CMakeFiles/ost_img.dir/circle_mask.cc.o -c /<>/modules/img/base/src/circle_mask.cc cd /<>/obj-arm-linux-gnueabihf/modules/geom/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/geom/pymod/__init__.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/geom/./__init__.pyc\",\"__init__.py\",doraise=True)" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 6%] Built target _ost_geom [ 6%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/atom_view.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/atom_view.cc.o -MF CMakeFiles/ost_mol.dir/atom_view.cc.o.d -o CMakeFiles/ost_mol.dir/atom_view.cc.o -c /<>/modules/mol/base/src/atom_view.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/modules/img/base/src/circle_mask.hh:25, from /<>/modules/img/base/src/circle_mask.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/residue_impl.hh:24, from /<>/modules/mol/base/src/atom_base.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec3.hh:22, from /<>/modules/mol/base/src/atom_base.hh:22, from /<>/modules/mol/base/src/atom_base.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 6%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/composite_mask.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/composite_mask.cc.o -MF CMakeFiles/ost_img.dir/composite_mask.cc.o.d -o CMakeFiles/ost_img.dir/composite_mask.cc.o -c /<>/modules/img/base/src/composite_mask.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/atom_impl.hh:25, from /<>/modules/mol/base/src/atom_handle.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/modules/mol/base/src/atom_handle.hh:22, from /<>/modules/mol/base/src/atom_handle.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/modules/mol/base/src/residue_view.hh:22, from /<>/modules/mol/base/src/atom_view.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/modules/mol/base/src/atom_view.hh:25, from /<>/modules/mol/base/src/atom_view.cc:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 6%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/bond_handle.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/bond_handle.cc.o -MF CMakeFiles/ost_mol.dir/bond_handle.cc.o.d -o CMakeFiles/ost_mol.dir/bond_handle.cc.o -c /<>/modules/mol/base/src/bond_handle.cc [ 6%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/chain_base.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/chain_base.cc.o -MF CMakeFiles/ost_mol.dir/chain_base.cc.o.d -o CMakeFiles/ost_mol.dir/chain_base.cc.o -c /<>/modules/mol/base/src/chain_base.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/modules/img/base/src/mask_base.hh:27, from /<>/modules/img/base/src/composite_mask.hh:28, from /<>/modules/img/base/src/composite_mask.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 6%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/data_algorithm.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/data_algorithm.cc.o -MF CMakeFiles/ost_img.dir/data_algorithm.cc.o.d -o CMakeFiles/ost_img.dir/data_algorithm.cc.o -c /<>/modules/img/base/src/data_algorithm.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/connector_impl.hh:24, from /<>/modules/mol/base/src/bond_handle.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/list:62, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/connector_impl_fw.hh:22, from /<>/modules/mol/base/src/bond_handle.hh:22, from /<>/modules/mol/base/src/bond_handle.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/chain_impl.hh:25, from /<>/modules/mol/base/src/chain_base.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/modules/mol/base/src/chain_base.hh:22, from /<>/modules/mol/base/src/chain_base.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 6%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/data_observer.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/data_observer.cc.o -MF CMakeFiles/ost_img.dir/data_observer.cc.o.d -o CMakeFiles/ost_img.dir/data_observer.cc.o -c /<>/modules/img/base/src/data_observer.cc [ 7%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/chain_handle.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/chain_handle.cc.o -MF CMakeFiles/ost_mol.dir/chain_handle.cc.o.d -o CMakeFiles/ost_mol.dir/chain_handle.cc.o -c /<>/modules/mol/base/src/chain_handle.cc [ 7%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/chain_view.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/chain_view.cc.o -MF CMakeFiles/ost_mol.dir/chain_view.cc.o.d -o CMakeFiles/ost_mol.dir/chain_view.cc.o -c /<>/modules/mol/base/src/chain_view.cc [ 7%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/chain_type.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/chain_type.cc.o -MF CMakeFiles/ost_mol.dir/chain_type.cc.o.d -o CMakeFiles/ost_mol.dir/chain_type.cc.o -c /<>/modules/mol/base/src/chain_type.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/img/base/src/vecmat.hh:33, from /<>/modules/img/base/src/point.hh:35, from /<>/modules/img/base/src/data.hh:36, from /<>/modules/img/base/src/image_handle.hh:38, from /<>/modules/img/base/src/data_observer.hh:31, from /<>/modules/img/base/src/data_observer.cc:28: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/img/base/src/data_observer.cc:26: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 7%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/coord_frame.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/coord_frame.cc.o -MF CMakeFiles/ost_mol.dir/coord_frame.cc.o.d -o CMakeFiles/ost_mol.dir/coord_frame.cc.o -c /<>/modules/mol/base/src/coord_frame.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/mol/base/src/chain_handle.hh:26, from /<>/modules/mol/base/src/chain_handle.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/modules/mol/base/src/chain_handle.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 8%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/data.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/data.cc.o -MF CMakeFiles/ost_img.dir/data.cc.o.d -o CMakeFiles/ost_img.dir/data.cc.o -c /<>/modules/img/base/src/data.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/entity_impl.hh:41, from /<>/modules/mol/base/src/chain_handle.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /<>/modules/mol/base/src/chain_view.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/algorithm:60, from /<>/modules/mol/base/src/chain_view.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/coord_frame.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/coord_source.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/in_mem_coord_source.hh:26, from /<>/modules/mol/base/src/coord_frame.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/invalid_handle.hh:22, from /<>/modules/mol/base/src/coord_frame.cc:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/img/base/src/vecmat.hh:33, from /<>/modules/img/base/src/point.hh:35, from /<>/modules/img/base/src/data.hh:36, from /<>/modules/img/base/src/data.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /<>/modules/img/base/src/data.cc:27: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 8%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/coord_group.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/coord_group.cc.o -MF CMakeFiles/ost_mol.dir/coord_group.cc.o.d -o CMakeFiles/ost_mol.dir/coord_group.cc.o -c /<>/modules/mol/base/src/coord_group.cc [ 8%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/extent_iterator.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/extent_iterator.cc.o -MF CMakeFiles/ost_img.dir/extent_iterator.cc.o.d -o CMakeFiles/ost_img.dir/extent_iterator.cc.o -c /<>/modules/img/base/src/extent_iterator.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/img/base/src/vecmat.hh:33, from /<>/modules/img/base/src/point.hh:35, from /<>/modules/img/base/src/extent_iterator.hh:30, from /<>/modules/img/base/src/extent_iterator.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/modules/img/base/src/point.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/coord_frame.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/coord_source.hh:27, from /<>/modules/mol/base/src/in_mem_coord_source.hh:26, from /<>/modules/mol/base/src/coord_group.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/invalid_handle.hh:22, from /<>/modules/mol/base/src/coord_group.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 8%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/editor_base.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/editor_base.cc.o -MF CMakeFiles/ost_mol.dir/editor_base.cc.o.d -o CMakeFiles/ost_mol.dir/editor_base.cc.o -c /<>/modules/mol/base/src/editor_base.cc [ 8%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/extent_mask.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/extent_mask.cc.o -MF CMakeFiles/ost_img.dir/extent_mask.cc.o.d -o CMakeFiles/ost_img.dir/extent_mask.cc.o -c /<>/modules/img/base/src/extent_mask.cc [ 8%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_base.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_base.cc.o -MF CMakeFiles/ost_mol.dir/entity_base.cc.o.d -o CMakeFiles/ost_mol.dir/entity_base.cc.o -c /<>/modules/mol/base/src/entity_base.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/mol/base/src/editor_base.hh:27, from /<>/modules/mol/base/src/editor_base.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/modules/mol/base/src/editor_base.hh:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/img/base/src/vecmat.hh:33, from /<>/modules/img/base/src/point.hh:35, from /<>/modules/img/base/src/extent.hh:34, from /<>/modules/img/base/src/extent_mask.hh:28, from /<>/modules/img/base/src/extent_mask.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /<>/modules/img/base/src/extent.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 8%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_handle.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_handle.cc.o -MF CMakeFiles/ost_mol.dir/entity_handle.cc.o.d -o CMakeFiles/ost_mol.dir/entity_handle.cc.o -c /<>/modules/mol/base/src/entity_handle.cc In file included from /<>/modules/mol/base/src/impl/entity_impl.hh:41, from /<>/modules/mol/base/src/editor_base.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 8%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/extent.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/extent.cc.o -MF CMakeFiles/ost_img.dir/extent.cc.o.d -o CMakeFiles/ost_img.dir/extent.cc.o -c /<>/modules/img/base/src/extent.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/entity_impl.hh:28, from /<>/modules/mol/base/src/entity_base.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/modules/mol/base/src/entity_base.hh:22, from /<>/modules/mol/base/src/entity_base.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/entity_impl.hh:41: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 8%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_observer.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_observer.cc.o -MF CMakeFiles/ost_mol.dir/entity_observer.cc.o.d -o CMakeFiles/ost_mol.dir/entity_observer.cc.o -c /<>/modules/mol/base/src/entity_observer.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/mol/base/src/impl/entity_impl.hh:28, from /<>/modules/mol/base/src/entity_handle.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /<>/modules/mol/base/src/entity_handle.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/img/base/src/vecmat.hh:33, from /<>/modules/img/base/src/point.hh:35, from /<>/modules/img/base/src/extent.hh:34, from /<>/modules/img/base/src/extent.cc:31: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/img/base/src/extent.cc:28: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 8%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_property_mapper.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_property_mapper.cc.o -MF CMakeFiles/ost_mol.dir/entity_property_mapper.cc.o.d -o CMakeFiles/ost_mol.dir/entity_property_mapper.cc.o -c /<>/modules/mol/base/src/entity_property_mapper.cc In file included from /<>/modules/mol/base/src/impl/entity_impl.hh:41: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 8%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/image_factory.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/image_factory.cc.o -MF CMakeFiles/ost_img.dir/image_factory.cc.o.d -o CMakeFiles/ost_img.dir/image_factory.cc.o -c /<>/modules/img/base/src/image_factory.cc [ 8%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_view.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_view.cc.o -MF CMakeFiles/ost_mol.dir/entity_view.cc.o.d -o CMakeFiles/ost_mol.dir/entity_view.cc.o -c /<>/modules/mol/base/src/entity_view.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/base/src/entity_property_mapper.hh:29, from /<>/modules/mol/base/src/entity_property_mapper.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/modules/mol/base/src/entity_property_mapper.hh:28: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/img/base/src/vecmat.hh:33, from /<>/modules/img/base/src/point.hh:35, from /<>/modules/img/base/src/extent.hh:34, from /<>/modules/img/base/src/image_factory.hh:32, from /<>/modules/img/base/src/image_factory.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /<>/modules/img/base/src/image_factory.cc:27: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 10%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_visitor.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/entity_visitor.cc.o -MF CMakeFiles/ost_mol.dir/entity_visitor.cc.o.d -o CMakeFiles/ost_mol.dir/entity_visitor.cc.o -c /<>/modules/mol/base/src/entity_visitor.cc [ 10%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/image_handle.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/image_handle.cc.o -MF CMakeFiles/ost_img.dir/image_handle.cc.o.d -o CMakeFiles/ost_img.dir/image_handle.cc.o -c /<>/modules/img/base/src/image_handle.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/modules/mol/base/src/entity_view.hh:32, from /<>/modules/mol/base/src/entity_view.cc:30: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/algorithm:60, from /<>/modules/mol/base/src/entity_view.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/modules/mol/base/src/impl/entity_impl.hh:41, from /<>/modules/mol/base/src/entity_view.cc:40: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/modules/mol/base/src/entity_view.cc: In member function ‘std::pair ost::mol::EntityView::GetMinMax(const String&, ost::mol::Prop::Level) const’: /<>/modules/mol/base/src/entity_view.cc:662:62: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 662 | Prop::Level hint) const | ^~~~~ [ 10%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/ics_editor.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/ics_editor.cc.o -MF CMakeFiles/ost_mol.dir/ics_editor.cc.o.d -o CMakeFiles/ost_mol.dir/ics_editor.cc.o -c /<>/modules/mol/base/src/ics_editor.cc [ 10%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/not_connected_error.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/not_connected_error.cc.o -MF CMakeFiles/ost_mol.dir/not_connected_error.cc.o.d -o CMakeFiles/ost_mol.dir/not_connected_error.cc.o -c /<>/modules/mol/base/src/not_connected_error.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/img/base/src/vecmat.hh:33, from /<>/modules/img/base/src/point.hh:35, from /<>/modules/img/base/src/data.hh:36, from /<>/modules/img/base/src/image_handle.hh:38, from /<>/modules/img/base/src/image_handle.cc:31: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /<>/modules/img/base/src/image_handle.cc:27: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/mol/base/src/ics_editor.hh:26, from /<>/modules/mol/base/src/ics_editor.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/modules/mol/base/src/ics_editor.hh:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/modules/mol/base/src/impl/entity_impl.hh:41, from /<>/modules/mol/base/src/ics_editor.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 10%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/property_id.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/property_id.cc.o -MF CMakeFiles/ost_mol.dir/property_id.cc.o.d -o CMakeFiles/ost_mol.dir/property_id.cc.o -c /<>/modules/mol/base/src/property_id.cc [ 10%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/image_impl.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/image_impl.cc.o -MF CMakeFiles/ost_img.dir/image_impl.cc.o.d -o CMakeFiles/ost_img.dir/image_impl.cc.o -c /<>/modules/img/base/src/image_impl.cc [ 10%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/query.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/query.cc.o -MF CMakeFiles/ost_mol.dir/query.cc.o.d -o CMakeFiles/ost_mol.dir/query.cc.o -c /<>/modules/mol/base/src/query.cc [ 10%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/query_error.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/query_error.cc.o -MF CMakeFiles/ost_mol.dir/query_error.cc.o.d -o CMakeFiles/ost_mol.dir/query_error.cc.o -c /<>/modules/mol/base/src/query_error.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /<>/modules/img/base/src/image_state/image_state_factory.hh:31, from /<>/modules/img/base/src/image_state_fw.hh:30, from /<>/modules/img/base/src/image_impl.hh:33, from /<>/modules/img/base/src/image_impl.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:18, from /usr/include/boost/shared_ptr.hpp:17, from /<>/modules/img/base/src/image_impl.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 10%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/image_list.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/image_list.cc.o -MF CMakeFiles/ost_img.dir/image_list.cc.o.d -o CMakeFiles/ost_img.dir/image_list.cc.o -c /<>/modules/img/base/src/image_list.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/modules/mol/base/src/query.hh:39, from /<>/modules/mol/base/src/query.cc:28: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/modules/mol/base/src/query.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 10%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/query_state.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/query_state.cc.o -MF CMakeFiles/ost_mol.dir/query_state.cc.o.d -o CMakeFiles/ost_mol.dir/query_state.cc.o -c /<>/modules/mol/base/src/query_state.cc [ 10%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/residue_base.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/residue_base.cc.o -MF CMakeFiles/ost_mol.dir/residue_base.cc.o.d -o CMakeFiles/ost_mol.dir/residue_base.cc.o -c /<>/modules/mol/base/src/residue_base.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/modules/img/base/src/image_list.hh:29, from /<>/modules/img/base/src/image_list.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/istream:40, from /usr/include/c++/13/sstream:40, from /<>/modules/img/base/src/image_list.cc:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 10%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/residue_handle.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/residue_handle.cc.o -MF CMakeFiles/ost_mol.dir/residue_handle.cc.o.d -o CMakeFiles/ost_mol.dir/residue_handle.cc.o -c /<>/modules/mol/base/src/residue_handle.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/modules/mol/base/src/query_state.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/mol/base/src/residue_base.hh:22, from /<>/modules/mol/base/src/residue_base.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/entity_impl.hh:41, from /<>/modules/mol/base/src/query_state.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 10%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/inverted_mask.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/inverted_mask.cc.o -MF CMakeFiles/ost_img.dir/inverted_mask.cc.o.d -o CMakeFiles/ost_img.dir/inverted_mask.cc.o -c /<>/modules/img/base/src/inverted_mask.cc [ 10%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/residue_view.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/residue_view.cc.o -MF CMakeFiles/ost_mol.dir/residue_view.cc.o.d -o CMakeFiles/ost_mol.dir/residue_view.cc.o -c /<>/modules/mol/base/src/residue_view.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/modules/img/base/src/mask_base.hh:27, from /<>/modules/img/base/src/inverted_mask.hh:23, from /<>/modules/img/base/src/inverted_mask.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /<>/modules/mol/base/src/residue_handle.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec3.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/entity_impl.hh:41, from /<>/modules/mol/base/src/residue_handle.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 10%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/map.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/map.cc.o -MF CMakeFiles/ost_img.dir/map.cc.o.d -o CMakeFiles/ost_img.dir/map.cc.o -c /<>/modules/img/base/src/map.cc [ 11%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/surface_builder.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/surface_builder.cc.o -MF CMakeFiles/ost_mol.dir/surface_builder.cc.o.d -o CMakeFiles/ost_mol.dir/surface_builder.cc.o -c /<>/modules/mol/base/src/surface_builder.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/chain_view.hh:23, from /<>/modules/mol/base/src/residue_view.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/algorithm:60, from /<>/modules/mol/base/src/residue_view.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/modules/img/base/src/map.hh:22, from /<>/modules/img/base/src/map.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/module_config.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:32: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 12%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/mask_base.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/mask_base.cc.o -MF CMakeFiles/ost_img.dir/mask_base.cc.o.d -o CMakeFiles/ost_img.dir/mask_base.cc.o -c /<>/modules/img/base/src/mask_base.cc [ 12%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/surface_handle.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/surface_handle.cc.o -MF CMakeFiles/ost_mol.dir/surface_handle.cc.o.d -o CMakeFiles/ost_mol.dir/surface_handle.cc.o -c /<>/modules/mol/base/src/surface_handle.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface_prop.hh:25, from /<>/modules/mol/base/src/surface_handle.hh:24, from /<>/modules/mol/base/src/surface_builder.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/modules/mol/base/src/surface_builder.hh:22, from /<>/modules/mol/base/src/surface_builder.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/modules/img/base/src/mask_base.hh:27, from /<>/modules/img/base/src/mask_base.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 12%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/transfer_connectivity.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/transfer_connectivity.cc.o -MF CMakeFiles/ost_mol.dir/transfer_connectivity.cc.o.d -o CMakeFiles/ost_mol.dir/transfer_connectivity.cc.o -c /<>/modules/mol/base/src/transfer_connectivity.cc [ 12%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/mask_op.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/mask_op.cc.o -MF CMakeFiles/ost_img.dir/mask_op.cc.o.d -o CMakeFiles/ost_img.dir/mask_op.cc.o -c /<>/modules/img/base/src/mask_op.cc [ 12%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/torsion_handle.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/torsion_handle.cc.o -MF CMakeFiles/ost_mol.dir/torsion_handle.cc.o.d -o CMakeFiles/ost_mol.dir/torsion_handle.cc.o -c /<>/modules/mol/base/src/torsion_handle.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface_prop.hh:25, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface_handle.hh:24, from /<>/modules/mol/base/src/surface_handle.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface_handle.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/modules/img/base/src/mask_base.hh:27, from /<>/modules/img/base/src/composite_mask.hh:28, from /<>/modules/img/base/src/mask_op.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /usr/include/boost/smart_ptr/scoped_ptr.hpp:23, from /usr/include/boost/scoped_ptr.hpp:13, from /usr/include/boost/smart_ptr.hpp:17, from /<>/modules/img/base/src/mask_base_fw.hh:23, from /<>/modules/img/base/src/mask_op.hh:24, from /<>/modules/img/base/src/mask_op.cc:21: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/modules/mol/base/src/query.hh:39, from /<>/modules/mol/base/src/entity_handle.hh:26, from /<>/modules/mol/base/src/transfer_connectivity.hh:24, from /<>/modules/mol/base/src/transfer_connectivity.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/modules/mol/base/src/module_config.hh:22, from /<>/modules/mol/base/src/transfer_connectivity.hh:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 12%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/mask.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/mask.cc.o -MF CMakeFiles/ost_img.dir/mask.cc.o.d -o CMakeFiles/ost_img.dir/mask.cc.o -c /<>/modules/img/base/src/mask.cc [ 12%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/query_view_wrapper.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/query_view_wrapper.cc.o -MF CMakeFiles/ost_mol.dir/query_view_wrapper.cc.o.d -o CMakeFiles/ost_mol.dir/query_view_wrapper.cc.o -c /<>/modules/mol/base/src/query_view_wrapper.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/connector_impl.hh:24, from /<>/modules/mol/base/src/torsion_handle.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:18, from /usr/include/boost/shared_ptr.hpp:17, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/torsion_impl_fw.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/torsion_handle.hh:22, from /<>/modules/mol/base/src/torsion_handle.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 12%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/view_op.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/view_op.cc.o -MF CMakeFiles/ost_mol.dir/view_op.cc.o.d -o CMakeFiles/ost_mol.dir/view_op.cc.o -c /<>/modules/mol/base/src/view_op.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/modules/img/base/src/polygon_mask.hh:28, from /<>/modules/img/base/src/mask.hh:29, from /<>/modules/img/base/src/mask.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /<>/modules/img/base/src/mask.hh:28: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 12%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/coord_source.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/coord_source.cc.o -MF CMakeFiles/ost_mol.dir/coord_source.cc.o.d -o CMakeFiles/ost_mol.dir/coord_source.cc.o -c /<>/modules/mol/base/src/coord_source.cc [ 12%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/observable.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/observable.cc.o -MF CMakeFiles/ost_img.dir/observable.cc.o.d -o CMakeFiles/ost_img.dir/observable.cc.o -c /<>/modules/img/base/src/observable.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/modules/mol/base/src/query_view_wrapper.hh:24, from /<>/modules/mol/base/src/query_view_wrapper.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:18, from /usr/include/boost/shared_ptr.hpp:17, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/view_type_fw.hh:22, from /<>/modules/mol/base/src/query_view_wrapper.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 12%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/in_mem_coord_source.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/in_mem_coord_source.cc.o -MF CMakeFiles/ost_mol.dir/in_mem_coord_source.cc.o.d -o CMakeFiles/ost_mol.dir/in_mem_coord_source.cc.o -c /<>/modules/mol/base/src/in_mem_coord_source.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/base/src/view_op.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/mol/base/src/view_op.cc:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/entity_impl.hh:41, from /<>/modules/mol/base/src/view_op.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/observable.hh:31, from /<>/modules/img/base/src/observable.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/list:62, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/observable.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/mol/base/src/xcs_editor.hh:26, from /<>/modules/mol/base/src/coord_source.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /<>/modules/mol/base/src/coord_source.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 12%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/paste_impl.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/paste_impl.cc.o -MF CMakeFiles/ost_img.dir/paste_impl.cc.o.d -o CMakeFiles/ost_img.dir/paste_impl.cc.o -c /<>/modules/img/base/src/paste_impl.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/coord_frame.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/coord_source.hh:27, from /<>/modules/mol/base/src/in_mem_coord_source.hh:26, from /<>/modules/mol/base/src/in_mem_coord_source.cc:1: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:18, from /usr/include/boost/shared_ptr.hpp:17, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/coord_source.hh:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 12%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/bounding_box.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/bounding_box.cc.o -MF CMakeFiles/ost_mol.dir/bounding_box.cc.o.d -o CMakeFiles/ost_mol.dir/bounding_box.cc.o -c /<>/modules/mol/base/src/bounding_box.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/modules/img/base/src/image_state/image_state_algorithm.hh:28, from /<>/modules/img/base/src/paste_impl.hh:24, from /<>/modules/img/base/src/paste_impl.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/module_config.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:32: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 12%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/xcs_editor.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/xcs_editor.cc.o -MF CMakeFiles/ost_mol.dir/xcs_editor.cc.o.d -o CMakeFiles/ost_mol.dir/xcs_editor.cc.o -c /<>/modules/mol/base/src/xcs_editor.cc [ 12%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/atom_impl.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/atom_impl.cc.o -MF CMakeFiles/ost_mol.dir/impl/atom_impl.cc.o.d -o CMakeFiles/ost_mol.dir/impl/atom_impl.cc.o -c /<>/modules/mol/base/src/impl/atom_impl.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/mol/base/src/xcs_editor.hh:26, from /<>/modules/mol/base/src/xcs_editor.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/modules/mol/base/src/xcs_editor.hh:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/base/src/bounding_box.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/eigen3/Eigen/src/Core/util/Macros.h:679, from /usr/include/eigen3/Eigen/Core:19, from /usr/include/eigen3/Eigen/Eigenvalues:11, from /<>/modules/mol/base/src/bounding_box.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 12%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/peak.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/peak.cc.o -MF CMakeFiles/ost_img.dir/peak.cc.o.d -o CMakeFiles/ost_img.dir/peak.cc.o -c /<>/modules/img/base/src/peak.cc In file included from /<>/modules/mol/base/src/impl/entity_impl.hh:41, from /<>/modules/mol/base/src/xcs_editor.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 14%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/chain_impl.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/chain_impl.cc.o -MF CMakeFiles/ost_mol.dir/impl/chain_impl.cc.o.d -o CMakeFiles/ost_mol.dir/impl/chain_impl.cc.o -c /<>/modules/mol/base/src/impl/chain_impl.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/mol/base/src/impl/atom_impl.hh:25, from /<>/modules/mol/base/src/impl/atom_impl.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/modules/mol/base/src/impl/atom_impl.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/modules/mol/base/src/impl/entity_impl.hh:41, from /<>/modules/mol/base/src/impl/atom_impl.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/img/base/src/vecmat.hh:33, from /<>/modules/img/base/src/point.hh:35, from /<>/modules/img/base/src/peak.hh:31, from /<>/modules/img/base/src/peak.cc:30: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/istream:40, from /usr/include/c++/13/fstream:40, from /<>/modules/img/base/src/peak.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 14%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/connector_impl.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/connector_impl.cc.o -MF CMakeFiles/ost_mol.dir/impl/connector_impl.cc.o.d -o CMakeFiles/ost_mol.dir/impl/connector_impl.cc.o -c /<>/modules/mol/base/src/impl/connector_impl.cc [ 14%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/phase.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/phase.cc.o -MF CMakeFiles/ost_img.dir/phase.cc.o.d -o CMakeFiles/ost_img.dir/phase.cc.o -c /<>/modules/img/base/src/phase.cc /<>/modules/img/base/src/phase.cc: In member function ‘const ost::img::Phase ost::img::Phase::operator+=(const ost::img::Phase&)’: /<>/modules/img/base/src/phase.cc:49:47: note: parameter passing for argument of type ‘ost::img::Phase’ when C++17 is enabled changed to match C++14 in GCC 10.1 49 | const Phase Phase::operator+=(const Phase& rhs) | ^ [ 14%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/physical_units.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/physical_units.cc.o -MF CMakeFiles/ost_img.dir/physical_units.cc.o.d -o CMakeFiles/ost_img.dir/physical_units.cc.o -c /<>/modules/img/base/src/physical_units.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/mol/base/src/impl/atom_impl.hh:25, from /<>/modules/mol/base/src/impl/chain_impl.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /<>/modules/mol/base/src/impl/chain_impl.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/modules/mol/base/src/impl/entity_impl.hh:41, from /<>/modules/mol/base/src/impl/chain_impl.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/mol/base/src/impl/connector_impl.hh:24, from /<>/modules/mol/base/src/impl/connector_impl.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/modules/mol/base/src/impl/connector_impl.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 14%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/dihedral.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/dihedral.cc.o -MF CMakeFiles/ost_mol.dir/impl/dihedral.cc.o.d -o CMakeFiles/ost_mol.dir/impl/dihedral.cc.o -c /<>/modules/mol/base/src/impl/dihedral.cc In file included from /<>/modules/mol/base/src/impl/entity_impl.hh:41, from /<>/modules/mol/base/src/impl/connector_impl.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 14%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/pixel_sampling.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/pixel_sampling.cc.o -MF CMakeFiles/ost_img.dir/pixel_sampling.cc.o.d -o CMakeFiles/ost_img.dir/pixel_sampling.cc.o -c /<>/modules/img/base/src/pixel_sampling.cc [ 14%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/entity_impl.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/entity_impl.cc.o -MF CMakeFiles/ost_mol.dir/impl/entity_impl.cc.o.d -o CMakeFiles/ost_mol.dir/impl/entity_impl.cc.o -c /<>/modules/mol/base/src/impl/entity_impl.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/img/base/src/vecmat.hh:33, from /<>/modules/img/base/src/pixel_sampling.hh:32, from /<>/modules/img/base/src/pixel_sampling.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/module_config.hh:23, from /<>/modules/img/base/src/pixel_sampling.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/atom_impl.hh:25, from /<>/modules/mol/base/src/impl/dihedral.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/weak_ptr.hpp:17, from /usr/include/boost/smart_ptr/enable_shared_from_this.hpp:17, from /usr/include/boost/enable_shared_from_this.hpp:16, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/atom_impl.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/entity_impl.hh:41, from /<>/modules/mol/base/src/impl/dihedral.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 14%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/fragment_impl.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/fragment_impl.cc.o -MF CMakeFiles/ost_mol.dir/impl/fragment_impl.cc.o.d -o CMakeFiles/ost_mol.dir/impl/fragment_impl.cc.o -c /<>/modules/mol/base/src/impl/fragment_impl.cc [ 14%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/point_list.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/point_list.cc.o -MF CMakeFiles/ost_img.dir/point_list.cc.o.d -o CMakeFiles/ost_img.dir/point_list.cc.o -c /<>/modules/img/base/src/point_list.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/mol/base/src/impl/entity_impl.cc:35: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/stl_tree.h:63, from /usr/include/c++/13/map:62, from /<>/modules/mol/base/src/impl/entity_impl.cc:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 14%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/query_ast.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/query_ast.cc.o -MF CMakeFiles/ost_mol.dir/impl/query_ast.cc.o.d -o CMakeFiles/ost_mol.dir/impl/query_ast.cc.o -c /<>/modules/mol/base/src/impl/query_ast.cc In file included from /<>/modules/mol/base/src/impl/entity_impl.hh:41, from /<>/modules/mol/base/src/impl/entity_impl.cc:40: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/mol/base/src/impl/fragment_impl.hh:22, from /<>/modules/mol/base/src/impl/fragment_impl.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/img/base/src/vecmat.hh:33, from /<>/modules/img/base/src/point.hh:35, from /<>/modules/img/base/src/point_list.hh:28, from /<>/modules/img/base/src/point_list.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/modules/img/base/src/point.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 14%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/point.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/point.cc.o -MF CMakeFiles/ost_img.dir/point.cc.o.d -o CMakeFiles/ost_img.dir/point.cc.o -c /<>/modules/img/base/src/point.cc [ 14%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/query_impl.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/query_impl.cc.o -MF CMakeFiles/ost_mol.dir/impl/query_impl.cc.o.d -o CMakeFiles/ost_mol.dir/impl/query_impl.cc.o -c /<>/modules/mol/base/src/impl/query_impl.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/img/base/src/vecmat.hh:33, from /<>/modules/img/base/src/point.hh:35, from /<>/modules/img/base/src/point.cc:31: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /<>/modules/img/base/src/point.cc:27: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 15%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/polygon_mask.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/polygon_mask.cc.o -MF CMakeFiles/ost_img.dir/polygon_mask.cc.o.d -o CMakeFiles/ost_img.dir/polygon_mask.cc.o -c /<>/modules/img/base/src/polygon_mask.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/base/src/impl/query_impl.hh:36, from /<>/modules/mol/base/src/impl/query_impl.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/modules/mol/base/src/impl/query_impl.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/modules/img/base/src/polygon_mask.hh:28, from /<>/modules/img/base/src/polygon_mask.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/algorithm:60, from /<>/modules/img/base/src/polygon_mask.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 15%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/progress.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/progress.cc.o -MF CMakeFiles/ost_img.dir/progress.cc.o.d -o CMakeFiles/ost_img.dir/progress.cc.o -c /<>/modules/img/base/src/progress.cc [ 15%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/size.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/size.cc.o -MF CMakeFiles/ost_img.dir/size.cc.o.d -o CMakeFiles/ost_img.dir/size.cc.o -c /<>/modules/img/base/src/size.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/img/base/src/vecmat.hh:33, from /<>/modules/img/base/src/point.hh:35, from /<>/modules/img/base/src/size.cc:32: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /<>/modules/img/base/src/size.cc:27: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 15%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/residue_impl.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/residue_impl.cc.o -MF CMakeFiles/ost_mol.dir/impl/residue_impl.cc.o.d -o CMakeFiles/ost_mol.dir/impl/residue_impl.cc.o -c /<>/modules/mol/base/src/impl/residue_impl.cc [ 15%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/spherical_mask.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/spherical_mask.cc.o -MF CMakeFiles/ost_img.dir/spherical_mask.cc.o.d -o CMakeFiles/ost_img.dir/spherical_mask.cc.o -c /<>/modules/img/base/src/spherical_mask.cc [ 15%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/surface_impl.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/surface_impl.cc.o -MF CMakeFiles/ost_mol.dir/impl/surface_impl.cc.o.d -o CMakeFiles/ost_mol.dir/impl/surface_impl.cc.o -c /<>/modules/mol/base/src/impl/surface_impl.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/modules/img/base/src/spherical_mask.hh:28, from /<>/modules/img/base/src/spherical_mask.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /<>/modules/mol/base/src/impl/residue_impl.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /<>/modules/mol/base/src/impl/residue_impl.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/modules/mol/base/src/impl/entity_impl.hh:41, from /<>/modules/mol/base/src/impl/residue_impl.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 15%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/mask_info_convert.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/mask_info_convert.cc.o -MF CMakeFiles/ost_img.dir/mask_info_convert.cc.o.d -o CMakeFiles/ost_img.dir/mask_info_convert.cc.o -c /<>/modules/img/base/src/mask_info_convert.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/modules/mol/base/src/impl/surface_impl.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info_group.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:32, from /<>/modules/img/base/src/mask_info_convert.cc:28: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/deque:62, from /usr/include/c++/13/stack:62, from /<>/modules/img/base/src/mask_info_convert.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 15%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/torsion_impl.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/torsion_impl.cc.o -MF CMakeFiles/ost_mol.dir/impl/torsion_impl.cc.o.d -o CMakeFiles/ost_mol.dir/impl/torsion_impl.cc.o -c /<>/modules/mol/base/src/impl/torsion_impl.cc [ 16%] Building CXX object modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/atom_prop.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_MOL -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/src/CMakeFiles/ost_mol.dir/impl/atom_prop.cc.o -MF CMakeFiles/ost_mol.dir/impl/atom_prop.cc.o.d -o CMakeFiles/ost_mol.dir/impl/atom_prop.cc.o -c /<>/modules/mol/base/src/impl/atom_prop.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/torsion_impl.hh:25, from /<>/modules/mol/base/src/impl/torsion_impl.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /<>/modules/mol/base/src/impl/torsion_impl.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 16%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/image_state/image_state_factory.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/image_state/image_state_factory.cc.o -MF CMakeFiles/ost_img.dir/image_state/image_state_factory.cc.o.d -o CMakeFiles/ost_img.dir/image_state/image_state_factory.cc.o -c /<>/modules/img/base/src/image_state/image_state_factory.cc [ 16%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/image_state/index.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/image_state/index.cc.o -MF CMakeFiles/ost_img.dir/image_state/index.cc.o.d -o CMakeFiles/ost_img.dir/image_state/index.cc.o -c /<>/modules/img/base/src/image_state/index.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/entity_impl.hh:41, from /<>/modules/mol/base/src/impl/torsion_impl.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 16%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/image_state/image_state_base.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/image_state/image_state_base.cc.o -MF CMakeFiles/ost_img.dir/image_state/image_state_base.cc.o.d -o CMakeFiles/ost_img.dir/image_state/image_state_base.cc.o -c /<>/modules/img/base/src/image_state/image_state_base.cc [ 16%] Building CXX object modules/img/base/src/CMakeFiles/ost_img.dir/raster_image/raster_image.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/src/CMakeFiles/ost_img.dir/raster_image/raster_image.cc.o -MF CMakeFiles/ost_img.dir/raster_image/raster_image.cc.o.d -o CMakeFiles/ost_img.dir/raster_image/raster_image.cc.o -c /<>/modules/img/base/src/raster_image/raster_image.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /<>/modules/img/base/src/image_state/image_state_factory.hh:31, from /<>/modules/img/base/src/image_state/image_state_factory.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data_types.hh:30, from /<>/modules/img/base/src/image_state/image_state_factory.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/modules/img/base/src/image_state/image_state_base.hh:34, from /<>/modules/img/base/src/image_state/image_state_base.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:18, from /usr/include/boost/shared_ptr.hpp:17, from /<>/modules/img/base/src/image_state/image_state_base_fw.hh:28, from /<>/modules/img/base/src/image_state/image_state_base.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/modules/img/base/src/raster_image/raster_image.hh:31, from /<>/modules/img/base/src/raster_image/raster_image.cc:38: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/modules/img/base/src/raster_image/raster_image.cc:31: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 16%] Linking CXX shared library ../../../../stage/lib/libost_mol.so cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_mol.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro -shared -Wl,-soname,libost_mol.so.2.5 -o ../../../../stage/lib/libost_mol.so.2.5.0 CMakeFiles/ost_mol.dir/atom_base.cc.o CMakeFiles/ost_mol.dir/atom_handle.cc.o CMakeFiles/ost_mol.dir/atom_view.cc.o CMakeFiles/ost_mol.dir/bond_handle.cc.o CMakeFiles/ost_mol.dir/chain_base.cc.o CMakeFiles/ost_mol.dir/chain_handle.cc.o CMakeFiles/ost_mol.dir/chain_view.cc.o CMakeFiles/ost_mol.dir/chain_type.cc.o CMakeFiles/ost_mol.dir/coord_frame.cc.o CMakeFiles/ost_mol.dir/coord_group.cc.o CMakeFiles/ost_mol.dir/editor_base.cc.o CMakeFiles/ost_mol.dir/entity_base.cc.o CMakeFiles/ost_mol.dir/entity_handle.cc.o CMakeFiles/ost_mol.dir/entity_observer.cc.o CMakeFiles/ost_mol.dir/entity_property_mapper.cc.o CMakeFiles/ost_mol.dir/entity_view.cc.o CMakeFiles/ost_mol.dir/entity_visitor.cc.o CMakeFiles/ost_mol.dir/ics_editor.cc.o CMakeFiles/ost_mol.dir/not_connected_error.cc.o CMakeFiles/ost_mol.dir/property_id.cc.o CMakeFiles/ost_mol.dir/query.cc.o CMakeFiles/ost_mol.dir/query_error.cc.o CMakeFiles/ost_mol.dir/query_state.cc.o CMakeFiles/ost_mol.dir/residue_base.cc.o CMakeFiles/ost_mol.dir/residue_handle.cc.o CMakeFiles/ost_mol.dir/residue_view.cc.o CMakeFiles/ost_mol.dir/surface_builder.cc.o CMakeFiles/ost_mol.dir/surface_handle.cc.o CMakeFiles/ost_mol.dir/transfer_connectivity.cc.o CMakeFiles/ost_mol.dir/torsion_handle.cc.o CMakeFiles/ost_mol.dir/query_view_wrapper.cc.o CMakeFiles/ost_mol.dir/view_op.cc.o CMakeFiles/ost_mol.dir/coord_source.cc.o CMakeFiles/ost_mol.dir/in_mem_coord_source.cc.o CMakeFiles/ost_mol.dir/bounding_box.cc.o CMakeFiles/ost_mol.dir/xcs_editor.cc.o CMakeFiles/ost_mol.dir/impl/atom_impl.cc.o CMakeFiles/ost_mol.dir/impl/chain_impl.cc.o CMakeFiles/ost_mol.dir/impl/connector_impl.cc.o CMakeFiles/ost_mol.dir/impl/dihedral.cc.o CMakeFiles/ost_mol.dir/impl/entity_impl.cc.o CMakeFiles/ost_mol.dir/impl/fragment_impl.cc.o CMakeFiles/ost_mol.dir/impl/query_ast.cc.o CMakeFiles/ost_mol.dir/impl/query_impl.cc.o CMakeFiles/ost_mol.dir/impl/residue_impl.cc.o CMakeFiles/ost_mol.dir/impl/surface_impl.cc.o CMakeFiles/ost_mol.dir/impl/torsion_impl.cc.o CMakeFiles/ost_mol.dir/impl/atom_prop.cc.o -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: ../../../../stage/lib/libost_info.so.2.5.0 ../../../../stage/lib/libost_base.so.2.5.0 ../../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E cmake_symlink_library ../../../../stage/lib/libost_mol.so.2.5.0 ../../../../stage/lib/libost_mol.so.2.5 ../../../../stage/lib/libost_mol.so make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 16%] Built target ost_mol make -f modules/base/pymod/CMakeFiles/_ost_base.dir/build.make modules/base/pymod/CMakeFiles/_ost_base.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/base/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/base/pymod /<>/obj-arm-linux-gnueabihf/modules/base/pymod/CMakeFiles/_ost_base.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/base/pymod/CMakeFiles/_ost_base.dir/build.make modules/base/pymod/CMakeFiles/_ost_base.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 16%] Building CXX object modules/base/pymod/CMakeFiles/_ost_base.dir/wrap_base.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -D_ost_base_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/pymod/CMakeFiles/_ost_base.dir/wrap_base.cc.o -MF CMakeFiles/_ost_base.dir/wrap_base.cc.o.d -o CMakeFiles/_ost_base.dir/wrap_base.cc.o -c /<>/modules/base/pymod/wrap_base.cc [ 16%] Building CXX object modules/base/pymod/CMakeFiles/_ost_base.dir/export_logger.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -D_ost_base_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/pymod/CMakeFiles/_ost_base.dir/export_logger.cc.o -MF CMakeFiles/_ost_base.dir/export_logger.cc.o.d -o CMakeFiles/_ost_base.dir/export_logger.cc.o -c /<>/modules/base/pymod/export_logger.cc [ 16%] Building CXX object modules/base/pymod/CMakeFiles/_ost_base.dir/export_range.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -D_ost_base_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/pymod/CMakeFiles/_ost_base.dir/export_range.cc.o -MF CMakeFiles/_ost_base.dir/export_range.cc.o.d -o CMakeFiles/_ost_base.dir/export_range.cc.o -c /<>/modules/base/pymod/export_range.cc [ 16%] Linking CXX shared library ../../../../stage/lib/libost_img.so cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_img.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro -shared -Wl,-soname,libost_img.so.2.5 -o ../../../../stage/lib/libost_img.so.2.5.0 CMakeFiles/ost_img.dir/circle_mask.cc.o CMakeFiles/ost_img.dir/composite_mask.cc.o CMakeFiles/ost_img.dir/data_algorithm.cc.o CMakeFiles/ost_img.dir/data_observer.cc.o CMakeFiles/ost_img.dir/data.cc.o CMakeFiles/ost_img.dir/extent_iterator.cc.o CMakeFiles/ost_img.dir/extent_mask.cc.o CMakeFiles/ost_img.dir/extent.cc.o CMakeFiles/ost_img.dir/image_factory.cc.o CMakeFiles/ost_img.dir/image_handle.cc.o CMakeFiles/ost_img.dir/image_impl.cc.o CMakeFiles/ost_img.dir/image_list.cc.o CMakeFiles/ost_img.dir/inverted_mask.cc.o CMakeFiles/ost_img.dir/map.cc.o CMakeFiles/ost_img.dir/mask_base.cc.o CMakeFiles/ost_img.dir/mask_op.cc.o CMakeFiles/ost_img.dir/mask.cc.o CMakeFiles/ost_img.dir/observable.cc.o CMakeFiles/ost_img.dir/paste_impl.cc.o CMakeFiles/ost_img.dir/peak.cc.o CMakeFiles/ost_img.dir/phase.cc.o CMakeFiles/ost_img.dir/physical_units.cc.o CMakeFiles/ost_img.dir/pixel_sampling.cc.o CMakeFiles/ost_img.dir/point_list.cc.o CMakeFiles/ost_img.dir/point.cc.o CMakeFiles/ost_img.dir/polygon_mask.cc.o CMakeFiles/ost_img.dir/progress.cc.o CMakeFiles/ost_img.dir/size.cc.o CMakeFiles/ost_img.dir/spherical_mask.cc.o CMakeFiles/ost_img.dir/mask_info_convert.cc.o CMakeFiles/ost_img.dir/image_state/image_state_factory.cc.o CMakeFiles/ost_img.dir/image_state/index.cc.o CMakeFiles/ost_img.dir/image_state/image_state_base.cc.o CMakeFiles/ost_img.dir/raster_image/raster_image.cc.o -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: ../../../../stage/lib/libost_info.so.2.5.0 ../../../../stage/lib/libost_base.so.2.5.0 ../../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E cmake_symlink_library ../../../../stage/lib/libost_img.so.2.5.0 ../../../../stage/lib/libost_img.so.2.5 ../../../../stage/lib/libost_img.so make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 16%] Built target ost_img make -f modules/seq/base/src/CMakeFiles/ost_seq.dir/build.make modules/seq/base/src/CMakeFiles/ost_seq.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/seq/base/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/seq/base/src /<>/obj-arm-linux-gnueabihf/modules/seq/base/src/CMakeFiles/ost_seq.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/seq/base/src/CMakeFiles/ost_seq.dir/build.make modules/seq/base/src/CMakeFiles/ost_seq.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 16%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/impl/sequence_impl.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/base/src/CMakeFiles/ost_seq.dir/impl/sequence_impl.cc.o -MF CMakeFiles/ost_seq.dir/impl/sequence_impl.cc.o.d -o CMakeFiles/ost_seq.dir/impl/sequence_impl.cc.o -c /<>/modules/seq/base/src/impl/sequence_impl.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info_group.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:32, from /<>/modules/seq/base/src/impl/sequence_impl.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /usr/include/boost/format.hpp:17, from /<>/modules/seq/base/src/impl/sequence_impl.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 16%] Building CXX object modules/base/pymod/CMakeFiles/_ost_base.dir/export_units.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -D_ost_base_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/pymod/CMakeFiles/_ost_base.dir/export_units.cc.o -MF CMakeFiles/_ost_base.dir/export_units.cc.o.d -o CMakeFiles/_ost_base.dir/export_units.cc.o -c /<>/modules/base/pymod/export_units.cc [ 16%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/impl/sequence_list_impl.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/base/src/CMakeFiles/ost_seq.dir/impl/sequence_list_impl.cc.o -MF CMakeFiles/ost_seq.dir/impl/sequence_list_impl.cc.o.d -o CMakeFiles/ost_seq.dir/impl/sequence_list_impl.cc.o -c /<>/modules/seq/base/src/impl/sequence_list_impl.cc [ 17%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/sequence_handle.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/base/src/CMakeFiles/ost_seq.dir/sequence_handle.cc.o -MF CMakeFiles/ost_seq.dir/sequence_handle.cc.o.d -o CMakeFiles/ost_seq.dir/sequence_handle.cc.o -c /<>/modules/seq/base/src/sequence_handle.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/modules/seq/base/src/sequence_handle.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/invalid_handle.hh:22, from /<>/modules/seq/base/src/sequence_handle.cc:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info_group.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:32, from /<>/modules/seq/base/src/impl/sequence_list_impl.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info_handle.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:31: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 17%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/aligned_region.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/base/src/CMakeFiles/ost_seq.dir/aligned_region.cc.o -MF CMakeFiles/ost_seq.dir/aligned_region.cc.o.d -o CMakeFiles/ost_seq.dir/aligned_region.cc.o -c /<>/modules/seq/base/src/aligned_region.cc [ 17%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/aligned_column.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/base/src/CMakeFiles/ost_seq.dir/aligned_column.cc.o -MF CMakeFiles/ost_seq.dir/aligned_column.cc.o.d -o CMakeFiles/ost_seq.dir/aligned_column.cc.o -c /<>/modules/seq/base/src/aligned_column.cc [ 17%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/sequence_list.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/base/src/CMakeFiles/ost_seq.dir/sequence_list.cc.o -MF CMakeFiles/ost_seq.dir/sequence_list.cc.o.d -o CMakeFiles/ost_seq.dir/sequence_list.cc.o -c /<>/modules/seq/base/src/sequence_list.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_region.hh:26, from /<>/modules/seq/base/src/aligned_region.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/integrity_error.hh:22, from /<>/modules/seq/base/src/aligned_region.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_region.hh:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:29:43: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 29 | class AlignedColumnIterator : public std::iterator>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column.hh:26, from /<>/modules/seq/base/src/aligned_column.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_impl_fw.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:27: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 17%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/alignment_handle.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/base/src/CMakeFiles/ost_seq.dir/alignment_handle.cc.o -MF CMakeFiles/ost_seq.dir/alignment_handle.cc.o.d -o CMakeFiles/ost_seq.dir/alignment_handle.cc.o -c /<>/modules/seq/base/src/alignment_handle.cc [ 17%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/sequence_op.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/base/src/CMakeFiles/ost_seq.dir/sequence_op.cc.o -MF CMakeFiles/ost_seq.dir/sequence_op.cc.o.d -o CMakeFiles/ost_seq.dir/sequence_op.cc.o -c /<>/modules/seq/base/src/sequence_op.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info_group.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:32, from /<>/modules/seq/base/src/sequence_list.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/invalid_handle.hh:22, from /<>/modules/seq/base/src/sequence_list.cc:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/modules/seq/base/src/sequence_list.cc:31: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/modules/seq/base/src/alignment_handle.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/invalid_handle.hh:22, from /<>/modules/seq/base/src/alignment_handle.cc:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /<>/modules/seq/base/src/alignment_handle.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_region.hh:27, from /<>/modules/seq/base/src/alignment_handle.cc:32: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:29:43: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 29 | class AlignedColumnIterator : public std::iterator>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/seq/base/src/sequence_op.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/istream:40, from /usr/include/c++/13/sstream:40, from /<>/modules/seq/base/src/sequence_op.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 17%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/views_from_sequences.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/base/src/CMakeFiles/ost_seq.dir/views_from_sequences.cc.o -MF CMakeFiles/ost_seq.dir/views_from_sequences.cc.o.d -o CMakeFiles/ost_seq.dir/views_from_sequences.cc.o -c /<>/modules/seq/base/src/views_from_sequences.cc [ 17%] Building CXX object modules/seq/base/src/CMakeFiles/ost_seq.dir/profile_handle.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_SEQ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/base/src/CMakeFiles/ost_seq.dir/profile_handle.cc.o -MF CMakeFiles/ost_seq.dir/profile_handle.cc.o.d -o CMakeFiles/ost_seq.dir/profile_handle.cc.o -c /<>/modules/seq/base/src/profile_handle.cc make -f modules/img/alg/src/CMakeFiles/ost_img_alg.dir/build.make modules/img/alg/src/CMakeFiles/ost_img_alg.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/img/alg/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/img/alg/src /<>/obj-arm-linux-gnueabihf/modules/img/alg/src/CMakeFiles/ost_img_alg.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/img/alg/src/CMakeFiles/ost_img_alg.dir/build.make modules/img/alg/src/CMakeFiles/ost_img_alg.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 19%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/anisotropic.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/anisotropic.cc.o -MF CMakeFiles/ost_img_alg.dir/anisotropic.cc.o.d -o CMakeFiles/ost_img_alg.dir/anisotropic.cc.o -c /<>/modules/img/alg/src/anisotropic.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/views_from_sequences.hh:23, from /<>/modules/seq/base/src/views_from_sequences.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/integrity_error.hh:22, from /<>/modules/seq/base/src/views_from_sequences.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 19%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/auto_correlate.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/auto_correlate.cc.o -MF CMakeFiles/ost_img_alg.dir/auto_correlate.cc.o.d -o CMakeFiles/ost_img_alg.dir/auto_correlate.cc.o -c /<>/modules/img/alg/src/auto_correlate.cc [ 19%] Linking CXX shared library ../../../../stage/lib/libost_seq.so cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_seq.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro -shared -Wl,-soname,libost_seq.so.2.5 -o ../../../../stage/lib/libost_seq.so.2.5.0 CMakeFiles/ost_seq.dir/impl/sequence_impl.cc.o CMakeFiles/ost_seq.dir/impl/sequence_list_impl.cc.o CMakeFiles/ost_seq.dir/sequence_handle.cc.o CMakeFiles/ost_seq.dir/aligned_region.cc.o CMakeFiles/ost_seq.dir/aligned_column.cc.o CMakeFiles/ost_seq.dir/sequence_list.cc.o CMakeFiles/ost_seq.dir/alignment_handle.cc.o CMakeFiles/ost_seq.dir/sequence_op.cc.o CMakeFiles/ost_seq.dir/views_from_sequences.cc.o CMakeFiles/ost_seq.dir/profile_handle.cc.o -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so.1.83.0 ../../../../stage/lib/libost_mol.so.2.5.0 ../../../../stage/lib/libost_info.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 ../../../../stage/lib/libost_base.so.2.5.0 ../../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E cmake_symlink_library ../../../../stage/lib/libost_seq.so.2.5.0 ../../../../stage/lib/libost_seq.so.2.5 ../../../../stage/lib/libost_seq.so make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 19%] Built target ost_seq make -f modules/bindings/src/CMakeFiles/ost_bindings.dir/build.make modules/bindings/src/CMakeFiles/ost_bindings.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/bindings/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/bindings/src /<>/obj-arm-linux-gnueabihf/modules/bindings/src/CMakeFiles/ost_bindings.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/bindings/src/CMakeFiles/ost_bindings.dir/build.make modules/bindings/src/CMakeFiles/ost_bindings.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 19%] Building CXX object modules/bindings/src/CMakeFiles/ost_bindings.dir/wrap_tmalign.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/bindings/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_BINDINGS -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_bindings_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/bindings/src/CMakeFiles/ost_bindings.dir/wrap_tmalign.cc.o -MF CMakeFiles/ost_bindings.dir/wrap_tmalign.cc.o.d -o CMakeFiles/ost_bindings.dir/wrap_tmalign.cc.o -c /<>/modules/bindings/src/wrap_tmalign.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /<>/modules/img/alg/src/gaussian.hh:36, from /<>/modules/img/alg/src/anisotropic.hh:28, from /<>/modules/img/alg/src/anisotropic.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/modules/img/alg/src/anisotropic.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 19%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/convolute.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/convolute.cc.o -MF CMakeFiles/ost_img_alg.dir/convolute.cc.o.d -o CMakeFiles/ost_img_alg.dir/convolute.cc.o -c /<>/modules/img/alg/src/convolute.cc In file included from /<>/modules/bindings/src/USalign/TMalign.h:7, from /<>/modules/bindings/src/wrap_tmalign.cc:20: /<>/modules/bindings/src/USalign/NW.h: In function ‘void NWDP_SE(bool**, double**, double**, double**, int, int, double, double, int*, int)’: /<>/modules/bindings/src/USalign/NW.h:275:9: warning: unused variable ‘int_min’ [-Wunused-variable] 275 | int int_min=L*(gap_open-1); | ^~~~~~~ /<>/modules/bindings/src/USalign/NW.h:287:9: warning: unused variable ‘k’ [-Wunused-variable] 287 | int k=0; | ^ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/modules/img/alg/src/fft.hh:27, from /<>/modules/img/alg/src/auto_correlate.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /<>/modules/img/alg/src/auto_correlate.cc:21: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/modules/bindings/src/USalign/TMalign.h:9: /<>/modules/bindings/src/USalign/NWalign.h: In function ‘int NWalign_main(const char*, const char*, int, int, std::string&, std::string&, int, int*, int, int)’: /<>/modules/bindings/src/USalign/NWalign.h:415:41: warning: array subscript has type ‘char’ [-Wchar-subscripts] 415 | else S[i][j]=BLOSUM[seqx[i-1]][seqy[j-1]]; | ~~~~~~~~^ /<>/modules/bindings/src/USalign/NWalign.h:415:52: warning: array subscript has type ‘char’ [-Wchar-subscripts] 415 | else S[i][j]=BLOSUM[seqx[i-1]][seqy[j-1]]; | ~~~~~~~~^ /<>/modules/bindings/src/USalign/NWalign.h: In function ‘void get_seqID(const std::string&, const std::string&, std::string&, double&, int&)’: /<>/modules/bindings/src/USalign/NWalign.h:458:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 458 | for (int i=0;i>/modules/bindings/src/USalign/NWalign.h: In function ‘int extract_aln_from_resi(std::vector >&, char*, char*, std::vector >, std::vector >, std::vector, std::vector, int, int)’: /<>/modules/bindings/src/USalign/NWalign.h:697:14: warning: statement has no effect [-Wunused-value] 697 | for (i;i>/modules/bindings/src/USalign/NWalign.h:705:14: warning: statement has no effect [-Wunused-value] 705 | for (j;j>/modules/bindings/src/USalign/TMalign.h: In function ‘void make_sec(char*, double**, int, char*, std::string)’: /<>/modules/bindings/src/USalign/TMalign.h:878:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 878 | for (i=0;i>/modules/bindings/src/USalign/TMalign.h: In function ‘void output_pymol(std::string, std::string, std::string, double*, double (*)[3], int, int, int, int, const char*, const char*, const char*, const std::vector >&, const std::vector >&, std::string, std::string)’: /<>/modules/bindings/src/USalign/TMalign.h:1604:38: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘std::map, int>::mapped_type’ {aka ‘int’} [-Wsign-compare] 1604 | if (atom_site_pos==_atom_site["Cartn_x"]) /<>/modules/bindings/src/USalign/TMalign.h:1607:43: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘std::map, int>::mapped_type’ {aka ‘int’} [-Wsign-compare] 1607 | else if (atom_site_pos==_atom_site["Cartn_y"]) /<>/modules/bindings/src/USalign/TMalign.h:1610:43: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘std::map, int>::mapped_type’ {aka ‘int’} [-Wsign-compare] 1610 | else if (atom_site_pos==_atom_site["Cartn_z"]) /<>/modules/bindings/src/USalign/TMalign.h:1653:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 1653 | for (i=1;i>/modules/bindings/src/USalign/TMalign.h:1655:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 1655 | for (i=1;i>/modules/bindings/src/USalign/TMalign.h:1677:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 1677 | for (i=0;i>/modules/bindings/src/USalign/TMalign.h:1716:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 1716 | for (int p=0;p>/modules/bindings/src/USalign/TMalign.h: In function ‘void output_rasmol(std::string, std::string, std::string, double*, double (*)[3], int, int, int, int, const char*, const char*, const char*, const std::vector >&, const std::vector >&, std::string, std::string, int, int, double, int, double, double, double)’: /<>/modules/bindings/src/USalign/TMalign.h:1855:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 1855 | for (i=1;i>/modules/bindings/src/USalign/TMalign.h:1857:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 1857 | for (i=1;i>/modules/bindings/src/USalign/TMalign.h:1890:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 1890 | for (i=0;i>/modules/bindings/src/USalign/TMalign.h:2162:28: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2162 | if (!mm_opt) for (i=1;i>/modules/bindings/src/USalign/TMalign.h:2372:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2372 | for (i=1;i>/modules/bindings/src/USalign/TMalign.h: In function ‘int TMalign_main(double**, double**, const char*, const char*, const char*, const char*, double*, double (*)[3], double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, std::string&, std::string&, std::string&, double&, int&, double&, double&, double&, int&, int&, int, int, std::vector >, double, double, int, int, bool, bool, bool, int, double)’: /<>/modules/bindings/src/USalign/TMalign.h:3289:12: warning: variable ‘Lnorm_d0’ set but not used [-Wunused-but-set-variable] 3289 | double Lnorm_d0; | ^~~~~~~~ /<>/modules/bindings/src/USalign/TMalign.h: In function ‘int CPalign_main(double**, double**, const char*, const char*, const char*, const char*, double*, double (*)[3], double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, std::string&, std::string&, std::string&, double&, int&, double&, double&, double&, int&, int&, int, int, std::vector >, double, double, int, int, bool, bool, bool, int, double)’: /<>/modules/bindings/src/USalign/TMalign.h:3467:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 3467 | for (i=0;i>/modules/bindings/src/USalign/TMalign.h:3572:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 3572 | for (i=0;i>/modules/bindings/src/USalign/TMalign.h: In function ‘bool output_cp(const std::string&, const std::string&, const std::string&, const std::string&, int, int&, int&, int&, int&)’: /<>/modules/bindings/src/USalign/TMalign.h:3606:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 3606 | for (r=0;r>/modules/bindings/src/USalign/MMalign.h:2, from /<>/modules/bindings/src/wrap_tmalign.cc:21: /<>/modules/bindings/src/USalign/se.h: In function ‘int se_main(double**, double**, const char*, const char*, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, std::string&, std::string&, std::string&, double&, int&, double&, double&, double&, int&, int&, int, int, const std::vector >&, double, double, bool, bool, int, bool, int, int, int*, int)’: /<>/modules/bindings/src/USalign/se.h:52:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 52 | for (int r=0;r>/modules/bindings/src/USalign/se.h:222:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::__cxx11::basic_string::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 222 | for (int r=0;r>/modules/bindings/src/USalign/se.h:44:9: warning: unused variable ‘i’ [-Wunused-variable] 44 | int i,j; | ^ /<>/modules/bindings/src/USalign/MMalign.h: In function ‘double homo_refined_greedy_search(double**, int*, int*, int, int, double**, double**, double, int, double**)’: /<>/modules/bindings/src/USalign/MMalign.h:440:12: warning: unused variable ‘TMnow’ [-Wunused-variable] 440 | double TMnow =0; | ^~~~~ /<>/modules/bindings/src/USalign/MMalign.h:441:12: warning: unused variable ‘TMmax’ [-Wunused-variable] 441 | double TMmax =0; | ^~~~~ /<>/modules/bindings/src/USalign/MMalign.h: In function ‘void clear_full_PDB_lines(std::vector > >, std::string)’: /<>/modules/bindings/src/USalign/MMalign.h:670:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector > >::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 670 | for (chain_i=0;chain_i>/modules/bindings/src/USalign/MMalign.h:673:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 673 | for (a=0;a>/modules/bindings/src/USalign/MMalign.h:687:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 687 | for (a=0;a>/modules/bindings/src/USalign/MMalign.h: In function ‘void output_dock(const std::vector >&, int, int, int, std::string, int, double**, const std::string&)’: /<>/modules/bindings/src/USalign/MMalign.h:1010:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 1010 | for (a=0;a>/modules/bindings/src/USalign/MMalign.h: In function ‘int copy_chain_pair_data(const std::vector > >&, const std::vector > >&, const std::vector >&, const std::vector >&, const std::vector >&, const std::vector >&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, double**, double**, char*, char*, char*, char*, int, int, std::vector > >&, std::vector > >&, int*, int*, std::vector >&)’: /<>/modules/bindings/src/USalign/MMalign.h:1166:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 1166 | for (i=0;i>/modules/bindings/src/USalign/MMalign.h: In function ‘void copy_chain_assign_data(int, int, std::vector >&, std::vector > >&, std::vector > >&, int*, int*, double**, std::vector > >&, std::vector > >&, int*, int*, double**)’: /<>/modules/bindings/src/USalign/MMalign.h:1590:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 1590 | for (i=0;i>/modules/bindings/src/USalign/MMalign.h: In function ‘int TMalign_dimer_main(double**, double**, const char*, const char*, const char*, const char*, double*, double (*)[3], double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, std::string&, std::string&, std::string&, double&, int&, double&, double&, double&, int&, int&, int, int, bool**, std::vector >, double, double, int, int, bool, bool, bool, int, double)’: /<>/modules/bindings/src/USalign/MMalign.h:2528:12: warning: variable ‘Lnorm_d0’ set but not used [-Wunused-but-set-variable] 2528 | double Lnorm_d0; | ^~~~~~~~ /<>/modules/bindings/src/USalign/MMalign.h: In function ‘void MMalign_dimer(double&, const std::vector > >&, const std::vector > >&, const std::vector >&, const std::vector >&, const std::vector >&, const std::vector >&, const std::vector&, const std::vector&, const std::vector&, const std::vector&, double**, double**, char*, char*, char*, char*, int, int, int, int, double**, std::vector > >&, std::vector > >&, int*, int*, std::vector >&, double, bool)’: /<>/modules/bindings/src/USalign/MMalign.h:2680:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2680 | for (c=0;c>/modules/bindings/src/USalign/MMalign.h: In function ‘void writeTrimComplex(std::vector > >&, std::vector >&, std::vector&, std::vector >&, std::vector&, const std::string&, std::string)’: /<>/modules/bindings/src/USalign/MMalign.h:2979:15: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 2979 | for (c=0;c>/modules/bindings/src/USalign/MMalign.h: In function ‘void output_dock_rotation_matrix(const char*, const std::vector >&, const std::vector >&, double**, int*)’: /<>/modules/bindings/src/USalign/MMalign.h:3016:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘unsigned int’} [-Wsign-compare] 3016 | for (i=0;i>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/correlate.cc.o -MF CMakeFiles/ost_img_alg.dir/correlate.cc.o.d -o CMakeFiles/ost_img_alg.dir/correlate.cc.o -c /<>/modules/img/alg/src/correlate.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/bindings/wrap_tmalign.hh:24, from /<>/modules/bindings/src/wrap_tmalign.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh: At global scope: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /<>/modules/bindings/src/USalign/param_set.h:6, from /<>/modules/bindings/src/USalign/TMalign.h:6: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/modules/img/alg/src/convolute.hh:24, from /<>/modules/img/alg/src/convolute.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/modules/img/alg/src/correlate.hh:24, from /<>/modules/img/alg/src/correlate.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 19%] Linking CXX shared module ../../../stage/lib/python3.12/dist-packages/ost/_ost_base.so cd /<>/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_base.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro -shared -o ../../../stage/lib/python3.12/dist-packages/ost/_ost_base.so CMakeFiles/_ost_base.dir/wrap_base.cc.o CMakeFiles/_ost_base.dir/export_logger.cc.o CMakeFiles/_ost_base.dir/export_range.cc.o CMakeFiles/_ost_base.dir/export_units.cc.o -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_base.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so.1.83.0 ../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 cd /<>/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/base/pymod/settings.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/./settings.pyc\",\"settings.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/base/pymod/stutil.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/./stutil.pyc\",\"stutil.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/base/pymod/table.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/./table.pyc\",\"table.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/base/pymod/table_selector.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/./table_selector.pyc\",\"table_selector.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/base/pymod/xmlrunner.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/./xmlrunner.pyc\",\"xmlrunner.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/base/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/base/pymod/testutils.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/./testutils.pyc\",\"testutils.py\",doraise=True)" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 19%] Built target _ost_base make -f modules/db/src/CMakeFiles/ost_db.dir/build.make modules/db/src/CMakeFiles/ost_db.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/db/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/db/src /<>/obj-arm-linux-gnueabihf/modules/db/src/CMakeFiles/ost_db.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/db/src/CMakeFiles/ost_db.dir/build.make modules/db/src/CMakeFiles/ost_db.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 19%] Building CXX object modules/db/src/CMakeFiles/ost_db.dir/sqlite_wrap.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_DB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -DSQLITE_OMIT_LOAD_EXTENSION -Dost_db_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/db/src/CMakeFiles/ost_db.dir/sqlite_wrap.cc.o -MF CMakeFiles/ost_db.dir/sqlite_wrap.cc.o.d -o CMakeFiles/ost_db.dir/sqlite_wrap.cc.o -c /<>/modules/db/src/sqlite_wrap.cc In file included from /usr/include/c++/13/bits/stl_algo.h:61, from /usr/include/c++/13/algorithm:61, from /<>/modules/bindings/src/USalign/basic_fun.h:18, from /<>/modules/bindings/src/USalign/param_set.h:7: /usr/include/c++/13/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Distance = int; _Tp = pair; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/include/c++/13/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 224 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex, | ^~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_heap.h: In function ‘void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/include/c++/13/bits/stl_heap.h:224:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1812 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 [ 19%] Building CXX object modules/db/src/CMakeFiles/ost_db.dir/linear_indexer.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_DB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -DSQLITE_OMIT_LOAD_EXTENSION -Dost_db_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/db/src/CMakeFiles/ost_db.dir/linear_indexer.cc.o -MF CMakeFiles/ost_db.dir/linear_indexer.cc.o.d -o CMakeFiles/ost_db.dir/linear_indexer.cc.o -c /<>/modules/db/src/linear_indexer.cc /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1918 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h:1932:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1932 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1918 | __introsort_loop(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1918:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 /usr/include/c++/13/bits/stl_algo.h:1932:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1932 | std::__introsort_loop(__cut, __last, __depth_limit, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h: In function ‘void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’: /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1812 | __insertion_sort(_RandomAccessIterator __first, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1812:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 [ 19%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/cross_correlate.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/cross_correlate.cc.o -MF CMakeFiles/ost_img_alg.dir/cross_correlate.cc.o.d -o CMakeFiles/ost_img_alg.dir/cross_correlate.cc.o -c /<>/modules/img/alg/src/cross_correlate.cc [ 19%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/density_slice.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/density_slice.cc.o -MF CMakeFiles/ost_img_alg.dir/density_slice.cc.o.d -o CMakeFiles/ost_img_alg.dir/density_slice.cc.o -c /<>/modules/img/alg/src/density_slice.cc In file included from /usr/include/c++/13/vector:72, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/db/linear_indexer.hh:26, from /<>/modules/db/src/linear_indexer.cc:21: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {ost::db::AssemblyInfo}; _Tp = ost::db::AssemblyInfo; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /<>/modules/img/alg/src/cross_correlate.hh:27, from /<>/modules/img/alg/src/cross_correlate.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/module_config.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:31: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {ost::db::AssemblyInfo}; _Tp = ost::db::AssemblyInfo; _Alloc = std::allocator]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = ost::db::AssemblyInfo; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:1299:21, inlined from ‘void ost::db::LinearIndexer::AddAssembly(const String&, const std::vector >&, const std::vector&)’ at /<>/modules/db/src/linear_indexer.cc:140:24: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 19%] Building CXX object modules/db/src/CMakeFiles/ost_db.dir/binary_container.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_DB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -DSQLITE_OMIT_LOAD_EXTENSION -Dost_db_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/db/src/CMakeFiles/ost_db.dir/binary_container.cc.o -MF CMakeFiles/ost_db.dir/binary_container.cc.o.d -o CMakeFiles/ost_db.dir/binary_container.cc.o -c /<>/modules/db/src/binary_container.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/modules/img/alg/src/density_slice.hh:28, from /<>/modules/img/alg/src/density_slice.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 19%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/dft.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/dft.cc.o -MF CMakeFiles/ost_img_alg.dir/dft.cc.o.d -o CMakeFiles/ost_img_alg.dir/dft.cc.o -c /<>/modules/img/alg/src/dft.cc [ 19%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/fft.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/fft.cc.o -MF CMakeFiles/ost_img_alg.dir/fft.cc.o.d -o CMakeFiles/ost_img_alg.dir/fft.cc.o -c /<>/modules/img/alg/src/fft.cc In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’, inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ at /usr/include/c++/13/bits/stl_algo.h:4861:18, inlined from ‘double get_score_fast(double**, double**, double**, double**, double**, double**, int, int, int*, double, double, double*, double (*)[3])’ at /<>/modules/bindings/src/USalign/TMalign.h:547:9: /usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1947 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1948 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1949 | __comp); | ~~~~~~~ In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’, inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’ at /usr/include/c++/13/bits/stl_algo.h:1950:31, inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ at /usr/include/c++/13/bits/stl_algo.h:4861:18, inlined from ‘double get_score_fast(double**, double**, double**, double**, double**, double**, int, int, int*, double, double, double*, double (*)[3])’ at /<>/modules/bindings/src/USalign/TMalign.h:547:9: /usr/include/c++/13/bits/stl_algo.h:1859:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1859 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1864:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1864 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’, inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ at /usr/include/c++/13/bits/stl_algo.h:4861:18, inlined from ‘double get_score_fast(double**, double**, double**, double**, double**, double**, int, int, int*, double, double, double*, double (*)[3])’ at /<>/modules/bindings/src/USalign/TMalign.h:588:13: /usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1947 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1948 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1949 | __comp); | ~~~~~~~ In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’, inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’ at /usr/include/c++/13/bits/stl_algo.h:1950:31, inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ at /usr/include/c++/13/bits/stl_algo.h:4861:18, inlined from ‘double get_score_fast(double**, double**, double**, double**, double**, double**, int, int, int*, double, double, double*, double (*)[3])’ at /<>/modules/bindings/src/USalign/TMalign.h:588:13: /usr/include/c++/13/bits/stl_algo.h:1859:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1859 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1864:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1864 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’, inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ at /usr/include/c++/13/bits/stl_algo.h:4861:18, inlined from ‘double get_score_fast(double**, double**, double**, double**, double**, double**, int, int, int*, double, double, double*, double (*)[3])’ at /<>/modules/bindings/src/USalign/TMalign.h:588:13: /usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1947 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1948 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1949 | __comp); | ~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’, inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator >]’ at /usr/include/c++/13/bits/stl_algo.h:4861:18, inlined from ‘double get_score_fast(double**, double**, double**, double**, double**, double**, int, int, int*, double, double, double*, double (*)[3])’ at /<>/modules/bindings/src/USalign/TMalign.h:547:9: /usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 1947 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1948 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1949 | __comp); | ~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /<>/modules/img/alg/src/dft.hh:24, from /<>/modules/img/alg/src/dft.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/module_config.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:31: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/db/binary_container.hh:24, from /<>/modules/db/src/binary_container.cc:21: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {const long long unsigned int&}; _Tp = long long unsigned int; _Alloc = std::allocator]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/modules/img/alg/src/fft.cc:36: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/istream:40, from /usr/include/c++/13/sstream:40, from /<>/modules/img/alg/src/fft.cc:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 19%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/fourier_filters.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/fourier_filters.cc.o -MF CMakeFiles/ost_img_alg.dir/fourier_filters.cc.o.d -o CMakeFiles/ost_img_alg.dir/fourier_filters.cc.o -c /<>/modules/img/alg/src/fourier_filters.cc In file included from /usr/include/c++/13/vector:66: In member function ‘void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = long long unsigned int; _Alloc = std::allocator]’, inlined from ‘void ost::PagedArray::push_back(const T&) [with T = long long unsigned int; long long unsigned int P = 1048576]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/paged_array.hh:67:28, inlined from ‘void ost::db::LinearPositionContainer::AddPositions(const geom::Vec3List&)’ at /<>/modules/db/src/binary_container.cc:173:20: /usr/include/c++/13/bits/stl_vector.h:1292:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator > >’ changed in GCC 7.1 1292 | _M_realloc_insert(end(), __x); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ [ 19%] Building CXX object modules/db/src/CMakeFiles/ost_db.dir/extract_data_helper.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_DB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -DSQLITE_OMIT_LOAD_EXTENSION -Dost_db_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/db/src/CMakeFiles/ost_db.dir/extract_data_helper.cc.o -MF CMakeFiles/ost_db.dir/extract_data_helper.cc.o.d -o CMakeFiles/ost_db.dir/extract_data_helper.cc.o -c /<>/modules/db/src/extract_data_helper.cc [ 19%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/gaussian.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/gaussian.cc.o -MF CMakeFiles/ost_img_alg.dir/gaussian.cc.o.d -o CMakeFiles/ost_img_alg.dir/gaussian.cc.o -c /<>/modules/img/alg/src/gaussian.cc In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’, inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator*, vector > >]’ at /usr/include/c++/13/bits/stl_algo.h:4861:18, inlined from ‘double homo_refined_greedy_search(double**, int*, int*, int, int, double**, double**, double, int, double**)’ at /<>/modules/bindings/src/USalign/MMalign.h:489:17: /usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1947 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1948 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1949 | __comp); | ~~~~~~~ In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’, inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’ at /usr/include/c++/13/bits/stl_algo.h:1950:31, inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator*, vector > >]’ at /usr/include/c++/13/bits/stl_algo.h:4861:18, inlined from ‘double homo_refined_greedy_search(double**, int*, int*, int, int, double**, double**, double, int, double**)’ at /<>/modules/bindings/src/USalign/MMalign.h:489:17: /usr/include/c++/13/bits/stl_algo.h:1859:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1859 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1864:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1864 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/fft.hh:27, from /<>/modules/img/alg/src/fourier_filters.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/modules/img/alg/src/fourier_filters.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/db/extract_data_helper.hh:24, from /<>/modules/db/src/extract_data_helper.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec3.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/db/extract_data_helper.hh:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/c++/13/vector:72, from /<>/modules/bindings/src/USalign/basic_fun.h:16: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/db/extract_data_helper.hh:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /<>/modules/img/alg/src/gaussian.hh:36, from /<>/modules/img/alg/src/gaussian.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/modules/img/alg/src/gaussian.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 19%] Linking CXX shared library ../../../stage/lib/libost_db.so cd /<>/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_db.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro -shared -Wl,-soname,libost_db.so.2.5 -o ../../../stage/lib/libost_db.so.2.5.0 CMakeFiles/ost_db.dir/sqlite_wrap.cc.o CMakeFiles/ost_db.dir/linear_indexer.cc.o CMakeFiles/ost_db.dir/binary_container.cc.o CMakeFiles/ost_db.dir/extract_data_helper.cc.o -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: /usr/lib/arm-linux-gnueabihf/libsqlite3.so ../../../stage/lib/libost_seq.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so.1.83.0 ../../../stage/lib/libost_mol.so.2.5.0 ../../../stage/lib/libost_info.so.2.5.0 ../../../stage/lib/libost_base.so.2.5.0 ../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 cd /<>/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/cmake -E cmake_symlink_library ../../../stage/lib/libost_db.so.2.5.0 ../../../stage/lib/libost_db.so.2.5 ../../../stage/lib/libost_db.so make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 19%] Built target ost_db make -f modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/build.make modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/seq/alg/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/build.make modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 19%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/clip_alignment.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/clip_alignment.cc.o -MF CMakeFiles/ost_seq_alg.dir/clip_alignment.cc.o.d -o CMakeFiles/ost_seq_alg.dir/clip_alignment.cc.o -c /<>/modules/seq/alg/src/clip_alignment.cc [ 19%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/gaussian_gradient_magnitude.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/gaussian_gradient_magnitude.cc.o -MF CMakeFiles/ost_img_alg.dir/gaussian_gradient_magnitude.cc.o.d -o CMakeFiles/ost_img_alg.dir/gaussian_gradient_magnitude.cc.o -c /<>/modules/img/alg/src/gaussian_gradient_magnitude.cc [ 20%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/gaussian_laplacian.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/gaussian_laplacian.cc.o -MF CMakeFiles/ost_img_alg.dir/gaussian_laplacian.cc.o.d -o CMakeFiles/ost_img_alg.dir/gaussian_laplacian.cc.o -c /<>/modules/img/alg/src/gaussian_laplacian.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /<>/modules/img/alg/src/gaussian_gradient_magnitude.hh:28, from /<>/modules/img/alg/src/gaussian_gradient_magnitude.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/modules/img/alg/src/gaussian_gradient_magnitude.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/clip_alignment.hh:27, from /<>/modules/seq/alg/src/clip_alignment.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/modules/seq/alg/src/clip_alignment.cc:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 21%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/conservation.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/conservation.cc.o -MF CMakeFiles/ost_seq_alg.dir/conservation.cc.o.d -o CMakeFiles/ost_seq_alg.dir/conservation.cc.o -c /<>/modules/seq/alg/src/conservation.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /<>/modules/img/alg/src/gaussian_laplacian.hh:28, from /<>/modules/img/alg/src/gaussian_laplacian.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/modules/img/alg/src/gaussian_laplacian.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 21%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/highest_peak_search_3d.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/highest_peak_search_3d.cc.o -MF CMakeFiles/ost_img_alg.dir/highest_peak_search_3d.cc.o.d -o CMakeFiles/ost_img_alg.dir/highest_peak_search_3d.cc.o -c /<>/modules/img/alg/src/highest_peak_search_3d.cc [ 21%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/histogram.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/histogram.cc.o -MF CMakeFiles/ost_img_alg.dir/histogram.cc.o.d -o CMakeFiles/ost_img_alg.dir/histogram.cc.o -c /<>/modules/img/alg/src/histogram.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column.hh:26, from /<>/modules/seq/alg/src/conservation.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_impl_fw.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:27: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/c++/13/string:54, from /usr/include/boost/assert/source_location.hpp:15, from /usr/include/boost/exception/exception.hpp:9, from /usr/include/boost/throw_exception.hpp:21, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:31, from /usr/include/boost/smart_ptr/shared_ptr.hpp:18, from /usr/include/boost/shared_ptr.hpp:17, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_impl_fw.hh:27: In member function ‘bool std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_is_local() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:869:23, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from ‘std::vector ost::seq::alg::Conservation(const ost::seq::AlignmentHandle&, bool, const String&, bool)’ at /<>/modules/seq/alg/src/conservation.cc:128:27: /usr/include/c++/13/bits/basic_string.h:266:17: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::_M_string_length’ may be used uninitialized [-Wmaybe-uninitialized] 266 | if (_M_string_length > _S_local_capacity) | ^~~~~~~~~~~~~~~~ In file included from /usr/include/boost/variant.hpp:17, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:27: /usr/include/boost/variant/variant.hpp: In function ‘std::vector ost::seq::alg::Conservation(const ost::seq::AlignmentHandle&, bool, const String&, bool)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In member function ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from ‘std::vector ost::seq::alg::Conservation(const ost::seq::AlignmentHandle&, bool, const String&, bool)’ at /<>/modules/seq/alg/src/conservation.cc:128:27: /usr/include/c++/13/bits/basic_string.h:900:24: warning: ‘*(std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::.std::__cxx11::basic_string::::_M_allocated_capacity’ may be used uninitialized [-Wmaybe-uninitialized] 900 | _M_capacity(__str._M_allocated_capacity); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function ‘std::vector ost::seq::alg::Conservation(const ost::seq::AlignmentHandle&, bool, const String&, bool)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In file included from /usr/include/c++/13/string:42: In static member function ‘static constexpr void std::char_traits::assign(char_type&, const char_type&)’, inlined from ‘static void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:428:23, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:877:18, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from ‘std::vector ost::seq::alg::Conservation(const ost::seq::AlignmentHandle&, bool, const String&, bool)’ at /<>/modules/seq/alg/src/conservation.cc:128:27: /usr/include/c++/13/bits/char_traits.h:358:16: warning: ‘((const std::char_traits::char_type*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[8]’ may be used uninitialized [-Wmaybe-uninitialized] 358 | __c1 = __c2; | ^~~~ /usr/include/boost/variant/variant.hpp: In function ‘std::vector ost::seq::alg::Conservation(const ost::seq::AlignmentHandle&, bool, const String&, bool)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/stat.hh:30, from /<>/modules/img/alg/src/highest_peak_search_3d.cc:4: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/img/alg/src/highest_peak_search_3d.cc:1: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 21%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/contact_prediction_score.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/contact_prediction_score.cc.o -MF CMakeFiles/ost_seq_alg.dir/contact_prediction_score.cc.o.d -o CMakeFiles/ost_seq_alg.dir/contact_prediction_score.cc.o -c /<>/modules/seq/alg/src/contact_prediction_score.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /<>/modules/img/alg/src/stat.hh:30, from /<>/modules/img/alg/src/histogram.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /<>/modules/img/alg/src/histogram.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 21%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/line_iterator.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/line_iterator.cc.o -MF CMakeFiles/ost_img_alg.dir/line_iterator.cc.o.d -o CMakeFiles/ost_img_alg.dir/line_iterator.cc.o -c /<>/modules/img/alg/src/line_iterator.cc [ 21%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/local_sigma_threshold.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/local_sigma_threshold.cc.o -MF CMakeFiles/ost_img_alg.dir/local_sigma_threshold.cc.o.d -o CMakeFiles/ost_img_alg.dir/local_sigma_threshold.cc.o -c /<>/modules/img/alg/src/local_sigma_threshold.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column.hh:26, from /<>/modules/seq/alg/src/contact_prediction_score.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_impl_fw.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:27: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /<>/modules/img/alg/src/line_iterator.hh:29, from /<>/modules/img/alg/src/line_iterator.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/modules/bindings/src/USalign/NWalign.h: In function ‘int extract_aln_from_resi(std::vector >&, char*, char*, std::vector >, std::vector >, int)’: /<>/modules/bindings/src/USalign/NWalign.h:545:21: warning: ‘invmap’ may be used uninitialized [-Wmaybe-uninitialized] 545 | NWalign_main(seqx, seqy, xlen, ylen, sequence[0],sequence[1], | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 546 | mol_type, invmap, 0, glocal); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/modules/bindings/src/USalign/NWalign.h:535:14: note: ‘invmap’ was declared here 535 | int *invmap; | ^~~~~~ [ 21%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/mask_image.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/mask_image.cc.o -MF CMakeFiles/ost_img_alg.dir/mask_image.cc.o.d -o CMakeFiles/ost_img_alg.dir/mask_image.cc.o -c /<>/modules/img/alg/src/mask_image.cc In file included from /usr/include/c++/13/bits/stl_algobase.h:64: In constructor ‘constexpr std::pair<_T1, _T2>::pair(_U1&&, _U2&&) [with _U1 = double&; _U2 = int&; typename std::enable_if<(std::_PCC::_MoveConstructiblePair<_U1, _U2>() && std::_PCC::_ImplicitlyMoveConvertiblePair<_U1, _U2>()), bool>::type = true; _T1 = double; _T2 = int]’, inlined from ‘constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = double&; _T2 = int&]’ at /usr/include/c++/13/bits/stl_pair.h:927:72, inlined from ‘int trimComplex(std::vector > >&, std::vector >&, std::vector >&, std::vector&, const std::vector > >&, const std::vector >&, const std::vector >&, const std::vector&, const std::vector&, int, int)’ at /<>/modules/bindings/src/USalign/MMalign.h:2941:43: /usr/include/c++/13/bits/stl_pair.h:688:11: warning: ‘dinter’ may be used uninitialized [-Wmaybe-uninitialized] 688 | : first(std::forward<_U1>(__x)), second(std::forward<_U2>(__y)) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/modules/bindings/src/USalign/MMalign.h: In function ‘int trimComplex(std::vector > >&, std::vector >&, std::vector >&, std::vector&, const std::vector > >&, const std::vector >&, const std::vector >&, const std::vector&, const std::vector&, int, int)’: /<>/modules/bindings/src/USalign/MMalign.h:2894:12: note: ‘dinter’ was declared here 2894 | double dinter; | ^~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = std::pair; _Alloc = std::allocator >]’ at /usr/include/c++/13/bits/stl_vector.h:1299:21, inlined from ‘int trimComplex(std::vector > >&, std::vector >&, std::vector >&, std::vector&, const std::vector > >&, const std::vector >&, const std::vector >&, const std::vector&, const std::vector&, int, int)’ at /<>/modules/bindings/src/USalign/MMalign.h:2941:33: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’, inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator*, vector > >]’ at /usr/include/c++/13/bits/stl_algo.h:4861:18, inlined from ‘int trimComplex(std::vector > >&, std::vector >&, std::vector >&, std::vector&, const std::vector > >&, const std::vector >&, const std::vector >&, const std::vector&, const std::vector&, int, int)’ at /<>/modules/bindings/src/USalign/MMalign.h:2943:13: /usr/include/c++/13/bits/stl_algo.h:1947:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1947 | std::__introsort_loop(__first, __last, | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ 1948 | std::__lg(__last - __first) * 2, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1949 | __comp); | ~~~~~~~ In function ‘void std::__final_insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’, inlined from ‘void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator*, vector > >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]’ at /usr/include/c++/13/bits/stl_algo.h:1950:31, inlined from ‘void std::sort(_RAIter, _RAIter) [with _RAIter = __gnu_cxx::__normal_iterator*, vector > >]’ at /usr/include/c++/13/bits/stl_algo.h:4861:18, inlined from ‘int trimComplex(std::vector > >&, std::vector >&, std::vector >&, std::vector&, const std::vector > >&, const std::vector >&, const std::vector >&, const std::vector&, const std::vector&, int, int)’ at /<>/modules/bindings/src/USalign/MMalign.h:2943:13: /usr/include/c++/13/bits/stl_algo.h:1859:32: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1859 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_algo.h:1864:30: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 1864 | std::__insertion_sort(__first, __last, __comp); | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/modules/img/alg/src/local_sigma_threshold.hh:23, from /<>/modules/img/alg/src/local_sigma_threshold.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/img/alg/src/local_sigma_threshold.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 21%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/contact_weight_matrix.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/contact_weight_matrix.cc.o -MF CMakeFiles/ost_seq_alg.dir/contact_weight_matrix.cc.o.d -o CMakeFiles/ost_seq_alg.dir/contact_weight_matrix.cc.o -c /<>/modules/seq/alg/src/contact_weight_matrix.cc [ 21%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/normalizer.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/normalizer.cc.o -MF CMakeFiles/ost_img_alg.dir/normalizer.cc.o.d -o CMakeFiles/ost_img_alg.dir/normalizer.cc.o -c /<>/modules/img/alg/src/normalizer.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/modules/img/alg/src/mask_image.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/modules/bindings/src/wrap_tmalign.cc: In function ‘ost::bindings::MMAlignResult ost::bindings::WrappedMMAlign(const std::vector&, const std::vector&, const ost::seq::SequenceList&, const ost::seq::SequenceList&, const std::vector&, const std::vector&, bool)’: /<>/modules/bindings/src/wrap_tmalign.cc:896:36: warning: ‘seqx’ may be used uninitialized [-Wmaybe-uninitialized] 896 | if (byresi_opt==0) MMalign_iter(max_total_score, max_iter, xa_vec, ya_vec, | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 897 | seqx_vec, seqy_vec, secx_vec, secy_vec, mol_vec1, mol_vec2, xlen_vec, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 898 | ylen_vec, xa, ya, seqx, seqy, secx, secy, len_aa, len_na, chain1_num, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 899 | chain2_num, TMave_mat, seqxA_mat, seqyA_mat, assign1_list, assign2_list, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 900 | sequence, d0_scale, fast_opt); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/modules/bindings/src/wrap_tmalign.cc:548:11: note: ‘seqx’ was declared here 548 | char *seqx, *seqy; // for the protein sequence | ^~~~ /<>/modules/bindings/src/wrap_tmalign.cc:896:36: warning: ‘seqy’ may be used uninitialized [-Wmaybe-uninitialized] 896 | if (byresi_opt==0) MMalign_iter(max_total_score, max_iter, xa_vec, ya_vec, | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 897 | seqx_vec, seqy_vec, secx_vec, secy_vec, mol_vec1, mol_vec2, xlen_vec, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 898 | ylen_vec, xa, ya, seqx, seqy, secx, secy, len_aa, len_na, chain1_num, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 899 | chain2_num, TMave_mat, seqxA_mat, seqyA_mat, assign1_list, assign2_list, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 900 | sequence, d0_scale, fast_opt); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/modules/bindings/src/wrap_tmalign.cc:548:18: note: ‘seqy’ was declared here 548 | char *seqx, *seqy; // for the protein sequence | ^~~~ /<>/modules/bindings/src/wrap_tmalign.cc:896:36: warning: ‘secy’ may be used uninitialized [-Wmaybe-uninitialized] 896 | if (byresi_opt==0) MMalign_iter(max_total_score, max_iter, xa_vec, ya_vec, | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 897 | seqx_vec, seqy_vec, secx_vec, secy_vec, mol_vec1, mol_vec2, xlen_vec, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 898 | ylen_vec, xa, ya, seqx, seqy, secx, secy, len_aa, len_na, chain1_num, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 899 | chain2_num, TMave_mat, seqxA_mat, seqyA_mat, assign1_list, assign2_list, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 900 | sequence, d0_scale, fast_opt); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/modules/bindings/src/wrap_tmalign.cc:549:18: note: ‘secy’ was declared here 549 | char *secx, *secy; // for the secondary structure | ^~~~ /<>/modules/bindings/src/wrap_tmalign.cc:896:36: warning: ‘secx’ may be used uninitialized [-Wmaybe-uninitialized] 896 | if (byresi_opt==0) MMalign_iter(max_total_score, max_iter, xa_vec, ya_vec, | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 897 | seqx_vec, seqy_vec, secx_vec, secy_vec, mol_vec1, mol_vec2, xlen_vec, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 898 | ylen_vec, xa, ya, seqx, seqy, secx, secy, len_aa, len_na, chain1_num, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 899 | chain2_num, TMave_mat, seqxA_mat, seqyA_mat, assign1_list, assign2_list, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 900 | sequence, d0_scale, fast_opt); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/modules/bindings/src/wrap_tmalign.cc:549:11: note: ‘secx’ was declared here 549 | char *secx, *secy; // for the secondary structure | ^~~~ [ 21%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/normalizer_factory.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/normalizer_factory.cc.o -MF CMakeFiles/ost_img_alg.dir/normalizer_factory.cc.o.d -o CMakeFiles/ost_img_alg.dir/normalizer_factory.cc.o -c /<>/modules/img/alg/src/normalizer_factory.cc [ 21%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/distance_map.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/distance_map.cc.o -MF CMakeFiles/ost_seq_alg.dir/distance_map.cc.o.d -o CMakeFiles/ost_seq_alg.dir/distance_map.cc.o -c /<>/modules/seq/alg/src/distance_map.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /<>/modules/img/alg/src/normalizer.hh:28, from /<>/modules/img/alg/src/normalizer.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/module_config.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:31: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 21%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/norm_linear.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/norm_linear.cc.o -MF CMakeFiles/ost_img_alg.dir/norm_linear.cc.o.d -o CMakeFiles/ost_img_alg.dir/norm_linear.cc.o -c /<>/modules/img/alg/src/norm_linear.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/stat_min_max.hh:30, from /<>/modules/img/alg/src/normalizer_factory.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/module_config.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:31: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/seq/alg/src/distance_map.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/distance_map.hh:33, from /<>/modules/seq/alg/src/distance_map.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 21%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/norm_log.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/norm_log.cc.o -MF CMakeFiles/ost_img_alg.dir/norm_log.cc.o.d -o CMakeFiles/ost_img_alg.dir/norm_log.cc.o -c /<>/modules/img/alg/src/norm_log.cc [ 21%] Linking CXX shared library ../../../stage/lib/libost_bindings.so cd /<>/obj-arm-linux-gnueabihf/modules/bindings/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_bindings.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro -shared -Wl,-soname,libost_bindings.so.2.5 -o ../../../stage/lib/libost_bindings.so.2.5.0 CMakeFiles/ost_bindings.dir/wrap_tmalign.cc.o -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_seq.so.2.5.0 ../../../stage/lib/libost_mol.so.2.5.0 ../../../stage/lib/libost_info.so.2.5.0 ../../../stage/lib/libost_base.so.2.5.0 ../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so.1.83.0 [ 21%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/entropy.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/entropy.cc.o -MF CMakeFiles/ost_seq_alg.dir/entropy.cc.o.d -o CMakeFiles/ost_seq_alg.dir/entropy.cc.o -c /<>/modules/seq/alg/src/entropy.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/normalizer_impl.hh:32, from /<>/modules/img/alg/src/norm_linear.hh:28, from /<>/modules/img/alg/src/norm_linear.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:18, from /usr/include/boost/shared_ptr.hpp:17, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/normalizer_impl.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ cd /<>/obj-arm-linux-gnueabihf/modules/bindings/src && /usr/bin/cmake -E cmake_symlink_library ../../../stage/lib/libost_bindings.so.2.5.0 ../../../stage/lib/libost_bindings.so.2.5 ../../../stage/lib/libost_bindings.so make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 21%] Built target ost_bindings make -f modules/info/pymod/CMakeFiles/_ost_info.dir/build.make modules/info/pymod/CMakeFiles/_ost_info.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/info/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/info/pymod /<>/obj-arm-linux-gnueabihf/modules/info/pymod/CMakeFiles/_ost_info.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/info/pymod/CMakeFiles/_ost_info.dir/build.make modules/info/pymod/CMakeFiles/_ost_info.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 21%] Building CXX object modules/info/pymod/CMakeFiles/_ost_info.dir/wrap_info.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/info/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_info_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/info/pymod/CMakeFiles/_ost_info.dir/wrap_info.cc.o -MF CMakeFiles/_ost_info.dir/wrap_info.cc.o.d -o CMakeFiles/_ost_info.dir/wrap_info.cc.o -c /<>/modules/info/pymod/wrap_info.cc [ 23%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/norm_od.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/norm_od.cc.o -MF CMakeFiles/ost_img_alg.dir/norm_od.cc.o.d -o CMakeFiles/ost_img_alg.dir/norm_od.cc.o -c /<>/modules/img/alg/src/norm_od.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/normalizer_impl.hh:32, from /<>/modules/img/alg/src/norm_log.hh:28, from /<>/modules/img/alg/src/norm_log.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:18, from /usr/include/boost/shared_ptr.hpp:17, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/normalizer_impl.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 23%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/power_spectrum.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/power_spectrum.cc.o -MF CMakeFiles/ost_img_alg.dir/power_spectrum.cc.o.d -o CMakeFiles/ost_img_alg.dir/power_spectrum.cc.o -c /<>/modules/img/alg/src/power_spectrum.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /<>/modules/seq/alg/src/entropy.hh:24, from /<>/modules/seq/alg/src/entropy.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/modules/seq/alg/src/entropy.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/modules/seq/alg/src/entropy.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:29:43: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 29 | class AlignedColumnIterator : public std::iterator>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/global_align.cc.o -MF CMakeFiles/ost_seq_alg.dir/global_align.cc.o.d -o CMakeFiles/ost_seq_alg.dir/global_align.cc.o -c /<>/modules/seq/alg/src/global_align.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/normalizer_impl.hh:32, from /<>/modules/img/alg/src/norm_od.hh:28, from /<>/modules/img/alg/src/norm_od.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:18, from /usr/include/boost/shared_ptr.hpp:17, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/normalizer_impl.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 23%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/randomize.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/randomize.cc.o -MF CMakeFiles/ost_img_alg.dir/randomize.cc.o.d -o CMakeFiles/ost_img_alg.dir/randomize.cc.o -c /<>/modules/img/alg/src/randomize.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/modules/img/alg/src/fft.hh:27, from /<>/modules/img/alg/src/power_spectrum.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /<>/modules/img/alg/src/power_spectrum.cc:21: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /<>/modules/seq/alg/src/impl/align_impl.hh:22, from /<>/modules/seq/alg/src/global_align.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /<>/modules/seq/alg/src/global_align.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info_group.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:32, from /<>/modules/info/pymod/wrap_info.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/info/pymod/wrap_info.cc:27: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 23%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/smooth_mask_image.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/smooth_mask_image.cc.o -MF CMakeFiles/ost_img_alg.dir/smooth_mask_image.cc.o.d -o CMakeFiles/ost_img_alg.dir/smooth_mask_image.cc.o -c /<>/modules/img/alg/src/smooth_mask_image.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/modules/img/alg/src/randomize.hh:24, from /<>/modules/img/alg/src/randomize.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 23%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/ins_del.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/ins_del.cc.o -MF CMakeFiles/ost_seq_alg.dir/ins_del.cc.o.d -o CMakeFiles/ost_seq_alg.dir/ins_del.cc.o -c /<>/modules/seq/alg/src/ins_del.cc [ 23%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/stat.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/stat.cc.o -MF CMakeFiles/ost_img_alg.dir/stat.cc.o.d -o CMakeFiles/ost_img_alg.dir/stat.cc.o -c /<>/modules/img/alg/src/stat.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/modules/img/alg/src/smooth_mask_image.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:22, from /<>/modules/seq/alg/src/ins_del.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_impl_fw.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:27: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:29:43: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 29 | class AlignedColumnIterator : public std::iterator>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/stat_min_max.cc.o -MF CMakeFiles/ost_img_alg.dir/stat_min_max.cc.o.d -o CMakeFiles/ost_img_alg.dir/stat_min_max.cc.o -c /<>/modules/img/alg/src/stat_min_max.cc [ 23%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/local_align.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/local_align.cc.o -MF CMakeFiles/ost_seq_alg.dir/local_align.cc.o.d -o CMakeFiles/ost_seq_alg.dir/local_align.cc.o -c /<>/modules/seq/alg/src/local_align.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /<>/modules/img/alg/src/stat.hh:30, from /<>/modules/img/alg/src/stat.cc:32: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/modules/img/alg/src/stat.cc:26: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /<>/modules/img/alg/src/stat_min_max.hh:30, from /<>/modules/img/alg/src/stat_min_max.cc:32: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/modules/img/alg/src/stat_min_max.cc:26: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /<>/modules/seq/alg/src/impl/align_impl.hh:22, from /<>/modules/seq/alg/src/local_align.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /<>/modules/seq/alg/src/local_align.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 23%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/alg_transform.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/alg_transform.cc.o -MF CMakeFiles/ost_img_alg.dir/alg_transform.cc.o.d -o CMakeFiles/ost_img_alg.dir/alg_transform.cc.o -c /<>/modules/img/alg/src/alg_transform.cc [ 23%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/alg_mirror.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/alg_mirror.cc.o -MF CMakeFiles/ost_img_alg.dir/alg_mirror.cc.o.d -o CMakeFiles/ost_img_alg.dir/alg_mirror.cc.o -c /<>/modules/img/alg/src/alg_mirror.cc [ 23%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/merge_pairwise_alignments.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/merge_pairwise_alignments.cc.o -MF CMakeFiles/ost_seq_alg.dir/merge_pairwise_alignments.cc.o.d -o CMakeFiles/ost_seq_alg.dir/merge_pairwise_alignments.cc.o -c /<>/modules/seq/alg/src/merge_pairwise_alignments.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/modules/img/alg/src/alg_transform.hh:24, from /<>/modules/img/alg/src/alg_transform.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/modules/img/alg/src/alg_mirror.hh:24, from /<>/modules/img/alg/src/alg_mirror.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /<>/modules/seq/alg/src/merge_pairwise_alignments.hh:22, from /<>/modules/seq/alg/src/merge_pairwise_alignments.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/istream:40, from /usr/include/c++/13/sstream:40, from /<>/modules/seq/alg/src/merge_pairwise_alignments.cc:21: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 23%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/alg_shift.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/alg_shift.cc.o -MF CMakeFiles/ost_img_alg.dir/alg_shift.cc.o.d -o CMakeFiles/ost_img_alg.dir/alg_shift.cc.o -c /<>/modules/img/alg/src/alg_shift.cc [ 23%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/threshold.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/threshold.cc.o -MF CMakeFiles/ost_img_alg.dir/threshold.cc.o.d -o CMakeFiles/ost_img_alg.dir/threshold.cc.o -c /<>/modules/img/alg/src/threshold.cc [ 23%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/pair_subst_weight_matrix.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/pair_subst_weight_matrix.cc.o -MF CMakeFiles/ost_seq_alg.dir/pair_subst_weight_matrix.cc.o.d -o CMakeFiles/ost_seq_alg.dir/pair_subst_weight_matrix.cc.o -c /<>/modules/seq/alg/src/pair_subst_weight_matrix.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/modules/img/alg/src/alg_shift.hh:24, from /<>/modules/img/alg/src/alg_shift.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/modules/img/alg/src/threshold.hh:25, from /<>/modules/img/alg/src/threshold.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 23%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/discrete_shrink.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/discrete_shrink.cc.o -MF CMakeFiles/ost_img_alg.dir/discrete_shrink.cc.o.d -o CMakeFiles/ost_img_alg.dir/discrete_shrink.cc.o -c /<>/modules/img/alg/src/discrete_shrink.cc [ 24%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/transformation_base.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/transformation_base.cc.o -MF CMakeFiles/ost_img_alg.dir/transformation_base.cc.o.d -o CMakeFiles/ost_img_alg.dir/transformation_base.cc.o -c /<>/modules/img/alg/src/transformation_base.cc [ 24%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/semiglobal_align.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/semiglobal_align.cc.o -MF CMakeFiles/ost_seq_alg.dir/semiglobal_align.cc.o.d -o CMakeFiles/ost_seq_alg.dir/semiglobal_align.cc.o -c /<>/modules/seq/alg/src/semiglobal_align.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/modules/img/alg/src/transformation_base.hh:32, from /<>/modules/img/alg/src/transformation_base.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/modules/img/alg/src/transformation_base.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/modules/img/alg/src/discrete_shrink.hh:24, from /<>/modules/img/alg/src/discrete_shrink.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /<>/modules/img/alg/src/discrete_shrink.cc:21: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 24%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/transformations.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/transformations.cc.o -MF CMakeFiles/ost_img_alg.dir/transformations.cc.o.d -o CMakeFiles/ost_img_alg.dir/transformations.cc.o -c /<>/modules/img/alg/src/transformations.cc [ 24%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/fractional_shift.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/fractional_shift.cc.o -MF CMakeFiles/ost_img_alg.dir/fractional_shift.cc.o.d -o CMakeFiles/ost_img_alg.dir/fractional_shift.cc.o -c /<>/modules/img/alg/src/fractional_shift.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/modules/img/alg/src/transformation_base.hh:32, from /<>/modules/img/alg/src/transformations.hh:31, from /<>/modules/img/alg/src/transformations.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /<>/modules/img/alg/src/transformations.cc:27: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /<>/modules/seq/alg/src/impl/align_impl.hh:22, from /<>/modules/seq/alg/src/semiglobal_align.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /<>/modules/seq/alg/src/semiglobal_align.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 24%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/polar.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/polar.cc.o -MF CMakeFiles/ost_img_alg.dir/polar.cc.o.d -o CMakeFiles/ost_img_alg.dir/polar.cc.o -c /<>/modules/img/alg/src/polar.cc [ 25%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/sequence_identity.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/sequence_identity.cc.o -MF CMakeFiles/ost_seq_alg.dir/sequence_identity.cc.o.d -o CMakeFiles/ost_seq_alg.dir/sequence_identity.cc.o -c /<>/modules/seq/alg/src/sequence_identity.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/fft.hh:27, from /<>/modules/img/alg/src/fractional_shift.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/modules/img/alg/src/fractional_shift.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /<>/modules/img/alg/src/polar.hh:24, from /<>/modules/img/alg/src/polar.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/modules/img/alg/src/polar.hh:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 25%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/rscrosscorr.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/rscrosscorr.cc.o -MF CMakeFiles/ost_img_alg.dir/rscrosscorr.cc.o.d -o CMakeFiles/ost_img_alg.dir/rscrosscorr.cc.o -c /<>/modules/img/alg/src/rscrosscorr.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:22, from /<>/modules/seq/alg/src/sequence_identity.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_impl_fw.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:27: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 25%] Building CXX object modules/img/alg/src/CMakeFiles/ost_img_alg.dir/line_average.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_IMG_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/src/CMakeFiles/ost_img_alg.dir/line_average.cc.o -MF CMakeFiles/ost_img_alg.dir/line_average.cc.o.d -o CMakeFiles/ost_img_alg.dir/line_average.cc.o -c /<>/modules/img/alg/src/line_average.cc /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:29:43: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 29 | class AlignedColumnIterator : public std::iterator>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/sequence_similarity.cc.o -MF CMakeFiles/ost_seq_alg.dir/sequence_similarity.cc.o.d -o CMakeFiles/ost_seq_alg.dir/sequence_similarity.cc.o -c /<>/modules/seq/alg/src/sequence_similarity.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/modules/img/alg/src/rscrosscorr.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /<>/modules/img/alg/src/line_average.hh:23, from /<>/modules/img/alg/src/line_average.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 25%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/subst_weight_matrix.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/subst_weight_matrix.cc.o -MF CMakeFiles/ost_seq_alg.dir/subst_weight_matrix.cc.o.d -o CMakeFiles/ost_seq_alg.dir/subst_weight_matrix.cc.o -c /<>/modules/seq/alg/src/subst_weight_matrix.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:22, from /<>/modules/seq/alg/src/sequence_similarity.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_impl_fw.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:27: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:29:43: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 29 | class AlignedColumnIterator : public std::iterator>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/variance_map.cc.o -MF CMakeFiles/ost_seq_alg.dir/variance_map.cc.o.d -o CMakeFiles/ost_seq_alg.dir/variance_map.cc.o -c /<>/modules/seq/alg/src/variance_map.cc [ 25%] Linking CXX shared library ../../../../stage/lib/libost_img_alg.so cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_img_alg.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro -shared -Wl,-soname,libost_img_alg.so.2.5 -o ../../../../stage/lib/libost_img_alg.so.2.5.0 CMakeFiles/ost_img_alg.dir/anisotropic.cc.o CMakeFiles/ost_img_alg.dir/auto_correlate.cc.o CMakeFiles/ost_img_alg.dir/convolute.cc.o CMakeFiles/ost_img_alg.dir/correlate.cc.o CMakeFiles/ost_img_alg.dir/cross_correlate.cc.o CMakeFiles/ost_img_alg.dir/density_slice.cc.o CMakeFiles/ost_img_alg.dir/dft.cc.o CMakeFiles/ost_img_alg.dir/fft.cc.o CMakeFiles/ost_img_alg.dir/fourier_filters.cc.o CMakeFiles/ost_img_alg.dir/gaussian.cc.o CMakeFiles/ost_img_alg.dir/gaussian_gradient_magnitude.cc.o CMakeFiles/ost_img_alg.dir/gaussian_laplacian.cc.o CMakeFiles/ost_img_alg.dir/highest_peak_search_3d.cc.o CMakeFiles/ost_img_alg.dir/histogram.cc.o CMakeFiles/ost_img_alg.dir/line_iterator.cc.o CMakeFiles/ost_img_alg.dir/local_sigma_threshold.cc.o CMakeFiles/ost_img_alg.dir/mask_image.cc.o CMakeFiles/ost_img_alg.dir/normalizer.cc.o CMakeFiles/ost_img_alg.dir/normalizer_factory.cc.o CMakeFiles/ost_img_alg.dir/norm_linear.cc.o CMakeFiles/ost_img_alg.dir/norm_log.cc.o CMakeFiles/ost_img_alg.dir/norm_od.cc.o CMakeFiles/ost_img_alg.dir/power_spectrum.cc.o CMakeFiles/ost_img_alg.dir/randomize.cc.o CMakeFiles/ost_img_alg.dir/smooth_mask_image.cc.o CMakeFiles/ost_img_alg.dir/stat.cc.o CMakeFiles/ost_img_alg.dir/stat_min_max.cc.o CMakeFiles/ost_img_alg.dir/alg_transform.cc.o CMakeFiles/ost_img_alg.dir/alg_mirror.cc.o CMakeFiles/ost_img_alg.dir/alg_shift.cc.o CMakeFiles/ost_img_alg.dir/threshold.cc.o CMakeFiles/ost_img_alg.dir/discrete_shrink.cc.o CMakeFiles/ost_img_alg.dir/transformation_base.cc.o CMakeFiles/ost_img_alg.dir/transformations.cc.o CMakeFiles/ost_img_alg.dir/fractional_shift.cc.o CMakeFiles/ost_img_alg.dir/polar.cc.o CMakeFiles/ost_img_alg.dir/rscrosscorr.cc.o CMakeFiles/ost_img_alg.dir/line_average.cc.o -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so ../../../../stage/lib/libost_img.so.2.5.0 ../../../../stage/lib/libost_info.so.2.5.0 ../../../../stage/lib/libost_base.so.2.5.0 ../../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 [ 25%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/hmm_pseudo_counts.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/hmm_pseudo_counts.cc.o -MF CMakeFiles/ost_seq_alg.dir/hmm_pseudo_counts.cc.o.d -o CMakeFiles/ost_seq_alg.dir/hmm_pseudo_counts.cc.o -c /<>/modules/seq/alg/src/hmm_pseudo_counts.cc cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E cmake_symlink_library ../../../../stage/lib/libost_img_alg.so.2.5.0 ../../../../stage/lib/libost_img_alg.so.2.5 ../../../../stage/lib/libost_img_alg.so make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 25%] Built target ost_img_alg make -f modules/conop/src/CMakeFiles/ost_conop.dir/build.make modules/conop/src/CMakeFiles/ost_conop.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/conop/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/conop/src /<>/obj-arm-linux-gnueabihf/modules/conop/src/CMakeFiles/ost_conop.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/conop/src/CMakeFiles/ost_conop.dir/build.make modules/conop/src/CMakeFiles/ost_conop.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 25%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/processor.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_CONOP -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_conop_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/src/CMakeFiles/ost_conop.dir/processor.cc.o -MF CMakeFiles/ost_conop.dir/processor.cc.o.d -o CMakeFiles/ost_conop.dir/processor.cc.o -c /<>/modules/conop/src/processor.cc [ 25%] Linking CXX shared module ../../../stage/lib/python3.12/dist-packages/ost/info/_ost_info.so cd /<>/obj-arm-linux-gnueabihf/modules/info/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_info.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro -shared -o ../../../stage/lib/python3.12/dist-packages/ost/info/_ost_info.so CMakeFiles/_ost_info.dir/wrap_info.cc.o -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_info.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 ../../../stage/lib/libost_base.so.2.5.0 ../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 cd /<>/obj-arm-linux-gnueabihf/modules/info/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/info/pymod/__init__.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/info/./__init__.pyc\",\"__init__.py\",doraise=True)" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 25%] Built target _ost_info make -f modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/build.make modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/mol/base/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/mol/base/pymod /<>/obj-arm-linux-gnueabihf/modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/build.make modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 25%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_atom.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_atom.cc.o -MF CMakeFiles/_ost_mol.dir/export_atom.cc.o.d -o CMakeFiles/_ost_mol.dir/export_atom.cc.o -c /<>/modules/mol/base/pymod/export_atom.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/seq/alg/src/variance_map.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/istream:40, from /usr/include/c++/13/fstream:40, from /<>/modules/seq/alg/src/variance_map.cc:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/distance_map.hh:33, from /<>/modules/seq/alg/src/variance_map.cc:31: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/xcs_editor.hh:26, from /<>/modules/conop/src/processor.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /<>/modules/conop/src/processor.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/modules/seq/alg/src/hmm_pseudo_counts.cc: In static member function ‘static ost::seq::alg::ContextProfileDBPtr ost::seq::alg::ContextProfileDB::FromCRF(const String&)’: /<>/modules/seq/alg/src/hmm_pseudo_counts.cc:146:56: warning: ‘std::string boost::filesystem::extension(const path&)’ is deprecated: Use path::extension() instead [-Wdeprecated-declarations] 146 | if(boost::iequals(".gz", boost::filesystem::extension(filename))) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /<>/modules/seq/alg/src/hmm_pseudo_counts.cc:4: /usr/include/boost/filesystem/convenience.hpp:29:20: note: declared here 29 | inline std::string extension(const path& p) | ^~~~~~~~~ [ 25%] Building CXX object modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/hmm_score.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_SEQ_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_seq_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/hmm_score.cc.o -MF CMakeFiles/ost_seq_alg.dir/hmm_score.cc.o.d -o CMakeFiles/ost_seq_alg.dir/hmm_score.cc.o -c /<>/modules/seq/alg/src/hmm_score.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/base/pymod/export_atom.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/base/pymod/export_atom.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/hmm_score.hh:24, from /<>/modules/seq/alg/src/hmm_score.cc:1: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/profile_handle.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/hmm_score.hh:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 25%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/amino_acids.cc.o [ 25%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_atom_view.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_CONOP -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_conop_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/src/CMakeFiles/ost_conop.dir/amino_acids.cc.o -MF CMakeFiles/ost_conop.dir/amino_acids.cc.o.d -o CMakeFiles/ost_conop.dir/amino_acids.cc.o -c /<>/modules/conop/src/amino_acids.cc cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_atom_view.cc.o -MF CMakeFiles/_ost_mol.dir/export_atom_view.cc.o.d -o CMakeFiles/_ost_mol.dir/export_atom_view.cc.o -c /<>/modules/mol/base/pymod/export_atom_view.cc [ 25%] Linking CXX shared library ../../../../stage/lib/libost_seq_alg.so cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_seq_alg.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro -shared -Wl,-soname,libost_seq_alg.so.2.5 -o ../../../../stage/lib/libost_seq_alg.so.2.5.0 CMakeFiles/ost_seq_alg.dir/clip_alignment.cc.o CMakeFiles/ost_seq_alg.dir/conservation.cc.o CMakeFiles/ost_seq_alg.dir/contact_prediction_score.cc.o CMakeFiles/ost_seq_alg.dir/contact_weight_matrix.cc.o CMakeFiles/ost_seq_alg.dir/distance_map.cc.o CMakeFiles/ost_seq_alg.dir/entropy.cc.o CMakeFiles/ost_seq_alg.dir/global_align.cc.o CMakeFiles/ost_seq_alg.dir/ins_del.cc.o CMakeFiles/ost_seq_alg.dir/local_align.cc.o CMakeFiles/ost_seq_alg.dir/merge_pairwise_alignments.cc.o CMakeFiles/ost_seq_alg.dir/pair_subst_weight_matrix.cc.o CMakeFiles/ost_seq_alg.dir/semiglobal_align.cc.o CMakeFiles/ost_seq_alg.dir/sequence_identity.cc.o CMakeFiles/ost_seq_alg.dir/sequence_similarity.cc.o CMakeFiles/ost_seq_alg.dir/subst_weight_matrix.cc.o CMakeFiles/ost_seq_alg.dir/variance_map.cc.o CMakeFiles/ost_seq_alg.dir/hmm_pseudo_counts.cc.o CMakeFiles/ost_seq_alg.dir/hmm_score.cc.o -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: ../../../../stage/lib/libost_seq.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so.1.83.0 ../../../../stage/lib/libost_mol.so.2.5.0 ../../../../stage/lib/libost_info.so.2.5.0 ../../../../stage/lib/libost_base.so.2.5.0 ../../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E cmake_symlink_library ../../../../stage/lib/libost_seq_alg.so.2.5.0 ../../../../stage/lib/libost_seq_alg.so.2.5 ../../../../stage/lib/libost_seq_alg.so make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 25%] Built target ost_seq_alg make -f modules/img/base/pymod/CMakeFiles/_ost_img.dir/build.make modules/img/base/pymod/CMakeFiles/_ost_img.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/img/base/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/img/base/pymod /<>/obj-arm-linux-gnueabihf/modules/img/base/pymod/CMakeFiles/_ost_img.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/img/base/pymod/CMakeFiles/_ost_img.dir/build.make modules/img/base/pymod/CMakeFiles/_ost_img.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 25%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_data.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_data.cc.o -MF CMakeFiles/_ost_img.dir/export_data.cc.o.d -o CMakeFiles/_ost_img.dir/export_data.cc.o -c /<>/modules/img/base/pymod/export_data.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /<>/modules/conop/src/amino_acids.hh:26, from /<>/modules/conop/src/amino_acids.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/stl_tree.h:63, from /usr/include/c++/13/set:62, from /<>/modules/conop/src/amino_acids.hh:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/modules/conop/src/amino_acids.hh:61:42: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 61 | class AminoAcidSetIterator : public std::iterator>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_CONOP -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_conop_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/src/CMakeFiles/ost_conop.dir/conop.cc.o -MF CMakeFiles/ost_conop.dir/conop.cc.o.d -o CMakeFiles/ost_conop.dir/conop.cc.o -c /<>/modules/conop/src/conop.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/base/pymod/export_atom_view.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/base/pymod/export_atom_view.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/modules/img/base/pymod/export_data.cc:28: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/img/base/pymod/export_data.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/conop/src/conop.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /<>/modules/conop/src/conop.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 25%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/minimal_compound_lib.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_CONOP -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_conop_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/src/CMakeFiles/ost_conop.dir/minimal_compound_lib.cc.o -MF CMakeFiles/ost_conop.dir/minimal_compound_lib.cc.o.d -o CMakeFiles/ost_conop.dir/minimal_compound_lib.cc.o -c /<>/modules/conop/src/minimal_compound_lib.cc [ 25%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_data_algorithm.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_data_algorithm.cc.o -MF CMakeFiles/_ost_img.dir/export_data_algorithm.cc.o.d -o CMakeFiles/_ost_img.dir/export_data_algorithm.cc.o -c /<>/modules/img/base/pymod/export_data_algorithm.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /<>/modules/conop/src/compound_lib_base.hh:5, from /<>/modules/conop/src/minimal_compound_lib.hh:5, from /<>/modules/conop/src/minimal_compound_lib.cc:1: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/modules/conop/src/compound.hh:22, from /<>/modules/conop/src/compound_lib_base.hh:4: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 25%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_bond.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_bond.cc.o -MF CMakeFiles/_ost_mol.dir/export_bond.cc.o.d -o CMakeFiles/_ost_mol.dir/export_bond.cc.o -c /<>/modules/mol/base/pymod/export_bond.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /<>/modules/img/base/pymod/export_data_algorithm.cc:28: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/img/base/pymod/export_data_algorithm.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 25%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_chain.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_chain.cc.o -MF CMakeFiles/_ost_mol.dir/export_chain.cc.o.d -o CMakeFiles/_ost_mol.dir/export_chain.cc.o -c /<>/modules/mol/base/pymod/export_chain.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/base/pymod/export_bond.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/base/pymod/export_bond.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 26%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_extent.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_extent.cc.o -MF CMakeFiles/_ost_img.dir/export_extent.cc.o.d -o CMakeFiles/_ost_img.dir/export_extent.cc.o -c /<>/modules/img/base/pymod/export_extent.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/base/pymod/export_chain.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/base/pymod/export_chain.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /<>/modules/img/base/pymod/wrap_extent_iterator.hh:34, from /<>/modules/img/base/pymod/export_extent.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/img/base/pymod/export_extent.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 26%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_image_handle.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_image_handle.cc.o -MF CMakeFiles/_ost_img.dir/export_image_handle.cc.o.d -o CMakeFiles/_ost_img.dir/export_image_handle.cc.o -c /<>/modules/img/base/pymod/export_image_handle.cc [ 26%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/compound_lib_base.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_CONOP -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_conop_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/src/CMakeFiles/ost_conop.dir/compound_lib_base.cc.o -MF CMakeFiles/ost_conop.dir/compound_lib_base.cc.o.d -o CMakeFiles/ost_conop.dir/compound_lib_base.cc.o -c /<>/modules/conop/src/compound_lib_base.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /<>/modules/conop/src/compound_lib_base.hh:5, from /<>/modules/conop/src/compound_lib_base.cc:1: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/modules/conop/src/compound.hh:22, from /<>/modules/conop/src/compound_lib_base.hh:4: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 28%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/heuristic.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_CONOP -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_conop_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/src/CMakeFiles/ost_conop.dir/heuristic.cc.o -MF CMakeFiles/ost_conop.dir/heuristic.cc.o.d -o CMakeFiles/ost_conop.dir/heuristic.cc.o -c /<>/modules/conop/src/heuristic.cc [ 28%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_chain_view.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_chain_view.cc.o -MF CMakeFiles/_ost_mol.dir/export_chain_view.cc.o.d -o CMakeFiles/_ost_mol.dir/export_chain_view.cc.o -c /<>/modules/mol/base/pymod/export_chain_view.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /<>/modules/img/base/pymod/export_image_handle.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/img/base/pymod/export_image_handle.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/xcs_editor.hh:26, from /<>/modules/conop/src/heuristic.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /<>/modules/conop/src/heuristic.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 28%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/diag.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_CONOP -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_conop_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/src/CMakeFiles/ost_conop.dir/diag.cc.o -MF CMakeFiles/ost_conop.dir/diag.cc.o.d -o CMakeFiles/ost_conop.dir/diag.cc.o -c /<>/modules/conop/src/diag.cc [ 29%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_coord_group.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_coord_group.cc.o -MF CMakeFiles/_ost_mol.dir/export_coord_group.cc.o.d -o CMakeFiles/_ost_mol.dir/export_coord_group.cc.o -c /<>/modules/mol/base/pymod/export_coord_group.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/base/pymod/export_chain_view.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/base/pymod/export_chain_view.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /<>/modules/conop/src/diag.hh:23, from /<>/modules/conop/src/diag.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/atom_handle.hh:22, from /<>/modules/conop/src/diag.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/rule_based.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_CONOP -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_conop_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/src/CMakeFiles/ost_conop.dir/rule_based.cc.o -MF CMakeFiles/ost_conop.dir/rule_based.cc.o.d -o CMakeFiles/ost_conop.dir/rule_based.cc.o -c /<>/modules/conop/src/rule_based.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/xcs_editor.hh:26, from /<>/modules/conop/src/rule_based.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /<>/modules/conop/src/rule_based.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/coord_frame.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/coord_source.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/coord_group.hh:29, from /<>/modules/mol/base/pymod/export_coord_group.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/base/pymod/export_coord_group.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/model_check.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_CONOP -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_conop_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/src/CMakeFiles/ost_conop.dir/model_check.cc.o -MF CMakeFiles/ost_conop.dir/model_check.cc.o.d -o CMakeFiles/ost_conop.dir/model_check.cc.o -c /<>/modules/conop/src/model_check.cc [ 29%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_peak.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_peak.cc.o -MF CMakeFiles/_ost_img.dir/export_peak.cc.o.d -o CMakeFiles/_ost_img.dir/export_peak.cc.o -c /<>/modules/img/base/pymod/export_peak.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/modules/conop/src/model_check.hh:4, from /<>/modules/conop/src/model_check.cc:1: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/modules/conop/src/model_check.cc:2: /<>/modules/conop/src/amino_acids.hh:61:42: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 61 | class AminoAcidSetIterator : public std::iterator>/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_coord_frame.cc.o -MF CMakeFiles/_ost_mol.dir/export_coord_frame.cc.o.d -o CMakeFiles/_ost_mol.dir/export_coord_frame.cc.o -c /<>/modules/mol/base/pymod/export_coord_frame.cc [ 29%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_editors.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_editors.cc.o -MF CMakeFiles/_ost_mol.dir/export_editors.cc.o.d -o CMakeFiles/_ost_mol.dir/export_editors.cc.o -c /<>/modules/mol/base/pymod/export_editors.cc [ 29%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/compound.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_CONOP -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_conop_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/src/CMakeFiles/ost_conop.dir/compound.cc.o -MF CMakeFiles/ost_conop.dir/compound.cc.o.d -o CMakeFiles/ost_conop.dir/compound.cc.o -c /<>/modules/conop/src/compound.cc [ 29%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/compound_lib.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_CONOP -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_conop_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/src/CMakeFiles/ost_conop.dir/compound_lib.cc.o -MF CMakeFiles/ost_conop.dir/compound_lib.cc.o.d -o CMakeFiles/ost_conop.dir/compound_lib.cc.o -c /<>/modules/conop/src/compound_lib.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/peak.hh:31, from /<>/modules/img/base/pymod/export_peak.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/img/base/pymod/export_peak.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/coord_frame.hh:27, from /<>/modules/mol/base/pymod/export_coord_frame.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/base/pymod/export_coord_frame.cc:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /<>/modules/conop/src/compound_lib_base.hh:5, from /<>/modules/conop/src/compound_lib.hh:27, from /<>/modules/conop/src/compound_lib.cc:28: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/conop/src/compound_lib.cc:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/base/pymod/export_editors.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/base/pymod/export_editors.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/entity_impl.hh:41, from /<>/modules/mol/base/pymod/export_editors.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_entity.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_entity.cc.o -MF CMakeFiles/_ost_mol.dir/export_entity.cc.o.d -o CMakeFiles/_ost_mol.dir/export_entity.cc.o -c /<>/modules/mol/base/pymod/export_entity.cc [ 29%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_phase.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_phase.cc.o -MF CMakeFiles/_ost_img.dir/export_phase.cc.o.d -o CMakeFiles/_ost_img.dir/export_phase.cc.o -c /<>/modules/img/base/pymod/export_phase.cc [ 29%] Building CXX object modules/conop/src/CMakeFiles/ost_conop.dir/ring_finder.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_CONOP -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_conop_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/src/CMakeFiles/ost_conop.dir/ring_finder.cc.o -MF CMakeFiles/ost_conop.dir/ring_finder.cc.o.d -o CMakeFiles/ost_conop.dir/ring_finder.cc.o -c /<>/modules/conop/src/ring_finder.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/conop/src/ring_finder.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/modules/mol/base/pymod/export_entity.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/base/pymod/export_entity.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/entity_impl.hh:41, from /<>/modules/mol/base/pymod/export_entity.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh:27:33: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 27 | class pointer_it : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/boost/python/type_id.hpp:11, from /usr/include/boost/python/instance_holder.hpp:11, from /usr/include/boost/python/object/pointer_holder.hpp:14, from /usr/include/boost/python/to_python_indirect.hpp:10, from /usr/include/boost/python/converter/arg_to_python.hpp:10, from /usr/include/boost/python/call.hpp:15, from /usr/include/boost/python/object_core.hpp:14, from /usr/include/boost/python/args.hpp:22, from /usr/include/boost/python.hpp:11, from /<>/modules/img/base/pymod/export_phase.cc:25: /usr/include/boost/operators.hpp: In instantiation of ‘ost::img::Phase boost::operators_impl::operator+(const ost::img::Phase&, const ost::img::Phase&)’: /usr/include/boost/python/operators.hpp:212:1: required from ‘static PyObject* boost::python::detail::operator_l::apply::execute(lhs&, const rhs&) [with L = ost::img::Phase; R = ost::img::Phase; PyObject = _object; lhs = ost::img::Phase; rhs = ost::img::Phase]’ /usr/include/boost/python/operators.hpp:154:15: required from ‘void boost::python::detail::operator_::visit(ClassT&) const [with ClassT = boost::python::class_; boost::python::detail::operator_id id = boost::python::detail::op_add; L = boost::python::self_ns::self_t; R = boost::python::self_ns::self_t]’ /usr/include/boost/python/def_visitor.hpp:31:34: required from ‘static void boost::python::def_visitor_access::visit(const V&, classT&) [with V = boost::python::def_visitor >; classT = boost::python::class_]’ /usr/include/boost/python/def_visitor.hpp:67:34: required from ‘void boost::python::def_visitor::visit(classT&) const [with classT = boost::python::class_; DerivedVisitor = boost::python::detail::operator_]’ /usr/include/boost/python/class.hpp:221:22: required from ‘boost::python::class_::self& boost::python::class_::def(const boost::python::def_visitor&) [with Derived = boost::python::detail::operator_; W = ost::img::Phase; X1 = boost::python::detail::not_specified; X2 = boost::python::detail::not_specified; X3 = boost::python::detail::not_specified; self = boost::python::class_]’ /<>/modules/img/base/pymod/export_phase.cc:40:9: required from here /usr/include/boost/operators.hpp:269:1: note: parameter passing for argument of type ‘ost::img::Phase’ when C++17 is enabled changed to match C++14 in GCC 10.1 269 | BOOST_BINARY_OPERATOR_COMMUTATIVE( addable, + ) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/string:54, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/istream:40, from /usr/include/c++/13/sstream:40, from /usr/include/c++/13/complex:45, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:24: In member function ‘bool std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_is_local() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:869:23, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = bool; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = bool; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = bool; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetBoolProp(const String&, bool) [with H = ost::mol::BondHandle]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:372:38: /usr/include/c++/13/bits/basic_string.h:266:17: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::_M_string_length’ may be used uninitialized [-Wmaybe-uninitialized] 266 | if (_M_string_length > _S_local_capacity) | ^~~~~~~~~~~~~~~~ In file included from /usr/include/boost/variant.hpp:17, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:30: /usr/include/boost/variant/variant.hpp: In member function ‘void ost::GenericPropContainer::SetBoolProp(const String&, bool) [with H = ost::mol::BondHandle]’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In member function ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = bool; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = bool; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = bool; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetBoolProp(const String&, bool) [with H = ost::mol::BondHandle]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:372:38: /usr/include/c++/13/bits/basic_string.h:900:24: warning: ‘*(std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::.std::__cxx11::basic_string::::_M_allocated_capacity’ may be used uninitialized [-Wmaybe-uninitialized] 900 | _M_capacity(__str._M_allocated_capacity); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In member function ‘void ost::GenericPropContainer::SetBoolProp(const String&, bool) [with H = ost::mol::BondHandle]’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In file included from /usr/include/c++/13/ios:42: In static member function ‘static constexpr void std::char_traits::assign(char_type&, const char_type&)’, inlined from ‘static void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:428:23, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:877:18, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = bool; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = bool; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = bool; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetBoolProp(const String&, bool) [with H = ost::mol::BondHandle]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:372:38: /usr/include/c++/13/bits/char_traits.h:358:16: warning: ‘((const std::char_traits::char_type*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[8]’ may be used uninitialized [-Wmaybe-uninitialized] 358 | __c1 = __c2; | ^~~~ /usr/include/boost/variant/variant.hpp: In member function ‘void ost::GenericPropContainer::SetBoolProp(const String&, bool) [with H = ost::mol::BondHandle]’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ [ 29%] Linking CXX shared library ../../../stage/lib/libost_conop.so cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_conop.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro -shared -Wl,-soname,libost_conop.so.2.5 -o ../../../stage/lib/libost_conop.so.2.5.0 CMakeFiles/ost_conop.dir/processor.cc.o CMakeFiles/ost_conop.dir/amino_acids.cc.o CMakeFiles/ost_conop.dir/conop.cc.o CMakeFiles/ost_conop.dir/minimal_compound_lib.cc.o CMakeFiles/ost_conop.dir/compound_lib_base.cc.o CMakeFiles/ost_conop.dir/heuristic.cc.o CMakeFiles/ost_conop.dir/diag.cc.o CMakeFiles/ost_conop.dir/rule_based.cc.o CMakeFiles/ost_conop.dir/model_check.cc.o CMakeFiles/ost_conop.dir/compound.cc.o CMakeFiles/ost_conop.dir/compound_lib.cc.o CMakeFiles/ost_conop.dir/ring_finder.cc.o -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_db.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libsqlite3.so ../../../stage/lib/libost_seq.so.2.5.0 ../../../stage/lib/libost_mol.so.2.5.0 ../../../stage/lib/libost_info.so.2.5.0 ../../../stage/lib/libost_base.so.2.5.0 ../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so.1.83.0 cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E cmake_symlink_library ../../../stage/lib/libost_conop.so.2.5.0 ../../../stage/lib/libost_conop.so.2.5 ../../../stage/lib/libost_conop.so make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 29%] Built target ost_conop make -f modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/build.make modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/mol/alg/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/build.make modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 29%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/svd_superpose.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/svd_superpose.cc.o -MF CMakeFiles/ost_mol_alg.dir/svd_superpose.cc.o.d -o CMakeFiles/ost_mol_alg.dir/svd_superpose.cc.o -c /<>/modules/mol/alg/src/svd_superpose.cc [ 29%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_entity_view.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_entity_view.cc.o -MF CMakeFiles/_ost_mol.dir/export_entity_view.cc.o.d -o CMakeFiles/_ost_mol.dir/export_entity_view.cc.o -c /<>/modules/mol/base/pymod/export_entity_view.cc [ 29%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_point.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_point.cc.o -MF CMakeFiles/_ost_img.dir/export_point.cc.o.d -o CMakeFiles/_ost_img.dir/export_point.cc.o -c /<>/modules/img/base/pymod/export_point.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/svd_superpose.hh:27, from /<>/modules/mol/alg/src/svd_superpose.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/modules/mol/alg/src/svd_superpose.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point_list.hh:28, from /<>/modules/img/base/pymod/export_point.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/img/base/pymod/export_point.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/modules/mol/base/pymod/export_entity_view.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/base/pymod/export_entity_view.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_progress.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_progress.cc.o -MF CMakeFiles/_ost_img.dir/export_progress.cc.o.d -o CMakeFiles/_ost_img.dir/export_progress.cc.o -c /<>/modules/img/base/pymod/export_progress.cc [ 29%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/clash_score.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/clash_score.cc.o -MF CMakeFiles/ost_mol_alg.dir/clash_score.cc.o.d -o CMakeFiles/ost_mol_alg.dir/clash_score.cc.o -c /<>/modules/mol/alg/src/clash_score.cc [ 29%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_property_id.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_property_id.cc.o -MF CMakeFiles/_ost_mol.dir/export_property_id.cc.o.d -o CMakeFiles/_ost_mol.dir/export_property_id.cc.o -c /<>/modules/mol/base/pymod/export_property_id.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/modules/mol/alg/src/clash_score.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_query.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_query.cc.o -MF CMakeFiles/_ost_mol.dir/export_query.cc.o.d -o CMakeFiles/_ost_mol.dir/export_query.cc.o -c /<>/modules/mol/base/pymod/export_query.cc [ 29%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_raster_image.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_raster_image.cc.o -MF CMakeFiles/_ost_img.dir/export_raster_image.cc.o.d -o CMakeFiles/_ost_img.dir/export_raster_image.cc.o -c /<>/modules/img/base/pymod/export_raster_image.cc [ 29%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/sec_structure_segments.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/sec_structure_segments.cc.o -MF CMakeFiles/ost_mol_alg.dir/sec_structure_segments.cc.o.d -o CMakeFiles/ost_mol_alg.dir/sec_structure_segments.cc.o -c /<>/modules/mol/alg/src/sec_structure_segments.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/alg/src/sec_structure_segments.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/local_dist_diff_test.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/local_dist_diff_test.cc.o -MF CMakeFiles/ost_mol_alg.dir/local_dist_diff_test.cc.o.d -o CMakeFiles/ost_mol_alg.dir/local_dist_diff_test.cc.o -c /<>/modules/mol/alg/src/local_dist_diff_test.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/base/pymod/export_property_id.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/base/pymod/export_property_id.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/raster_image/raster_image.hh:31, from /<>/modules/img/base/pymod/export_raster_image.cc:28: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/img/base/pymod/export_raster_image.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/modules/mol/base/pymod/export_query.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/base/pymod/export_query.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/alg/src/local_dist_diff_test.cc:4: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/iomanip:42, from /<>/modules/mol/alg/src/local_dist_diff_test.cc:1: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_residue.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_residue.cc.o -MF CMakeFiles/_ost_mol.dir/export_residue.cc.o.d -o CMakeFiles/_ost_mol.dir/export_residue.cc.o -c /<>/modules/mol/base/pymod/export_residue.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /<>/modules/mol/alg/src/local_dist_diff_test.hh:24, from /<>/modules/mol/alg/src/local_dist_diff_test.cc:6: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/modules/mol/alg/src/local_dist_diff_test.hh:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/filter_clashes.hh: In member function ‘std::pair ost::mol::alg::StereoChemicalBondViolation::GetAllowedRange() const’: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/filter_clashes.hh:91:48: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 91 | std::pair GetAllowedRange() const { return allowed_range_; } | ^ [ 29%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_size.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_size.cc.o -MF CMakeFiles/_ost_img.dir/export_size.cc.o.d -o CMakeFiles/_ost_img.dir/export_size.cc.o -c /<>/modules/img/base/pymod/export_size.cc [ 29%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_residue_view.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_residue_view.cc.o -MF CMakeFiles/_ost_mol.dir/export_residue_view.cc.o.d -o CMakeFiles/_ost_mol.dir/export_residue_view.cc.o -c /<>/modules/mol/base/pymod/export_residue_view.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/modules/img/base/pymod/export_size.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/img/base/pymod/export_size.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/base/pymod/export_residue.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/base/pymod/export_residue.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/base/pymod/export_residue_view.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/base/pymod/export_residue_view.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/distance_test_common.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/distance_test_common.cc.o -MF CMakeFiles/ost_mol_alg.dir/distance_test_common.cc.o.d -o CMakeFiles/ost_mol_alg.dir/distance_test_common.cc.o -c /<>/modules/mol/alg/src/distance_test_common.cc [ 29%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_mask.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_mask.cc.o -MF CMakeFiles/_ost_img.dir/export_mask.cc.o.d -o CMakeFiles/_ost_img.dir/export_mask.cc.o -c /<>/modules/img/base/pymod/export_mask.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/distance_test_common.hh:22, from /<>/modules/mol/alg/src/distance_test_common.cc:1: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/distance_rmsd_test.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/distance_rmsd_test.cc.o -MF CMakeFiles/ost_mol_alg.dir/distance_rmsd_test.cc.o.d -o CMakeFiles/ost_mol_alg.dir/distance_rmsd_test.cc.o -c /<>/modules/mol/alg/src/distance_rmsd_test.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/polygon_mask.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/mask.hh:29, from /<>/modules/img/base/pymod/export_mask.cc:28: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/img/base/pymod/export_mask.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/alg/src/distance_rmsd_test.cc:2: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /<>/modules/mol/alg/src/distance_rmsd_test.cc:1: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/local_dist_diff_test.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/distance_rmsd_test.hh:24, from /<>/modules/mol/alg/src/distance_rmsd_test.cc:3: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/local_dist_diff_test.hh:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/filter_clashes.hh: In member function ‘std::pair ost::mol::alg::StereoChemicalBondViolation::GetAllowedRange() const’: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/filter_clashes.hh:91:48: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 91 | std::pair GetAllowedRange() const { return allowed_range_; } | ^ In file included from /usr/include/c++/13/string:54: In member function ‘bool std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_is_local() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:869:23, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38: /usr/include/c++/13/bits/basic_string.h:266:17: warning: ‘((__vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]’ may be used uninitialized [-Wmaybe-uninitialized] 266 | if (_M_string_length > _S_local_capacity) | ^~~~~~~~~~~~~~~~ In file included from /usr/include/boost/variant.hpp:17, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:30: /usr/include/boost/variant/variant.hpp: In member function ‘void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In member function ‘bool std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_is_local() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:869:23, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38: /usr/include/c++/13/bits/basic_string.h:266:17: warning: ‘((__vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]’ may be used uninitialized [-Wmaybe-uninitialized] 266 | if (_M_string_length > _S_local_capacity) | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In member function ‘void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ [ 29%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_image_list.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_image_list.cc.o -MF CMakeFiles/_ost_img.dir/export_image_list.cc.o.d -o CMakeFiles/_ost_img.dir/export_image_list.cc.o -c /<>/modules/img/base/pymod/export_image_list.cc [ 29%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_surface.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_surface.cc.o -MF CMakeFiles/_ost_mol.dir/export_surface.cc.o.d -o CMakeFiles/_ost_mol.dir/export_surface.cc.o -c /<>/modules/mol/base/pymod/export_surface.cc [ 29%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/superpose_frames.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/superpose_frames.cc.o -MF CMakeFiles/ost_mol_alg.dir/superpose_frames.cc.o.d -o CMakeFiles/ost_mol_alg.dir/superpose_frames.cc.o -c /<>/modules/mol/alg/src/superpose_frames.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/alg/src/superpose_frames.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/eigen3/Eigen/src/Core/util/Macros.h:679, from /usr/include/eigen3/Eigen/Core:19, from /usr/include/eigen3/Eigen/Eigenvalues:11, from /<>/modules/mol/alg/src/superpose_frames.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /<>/modules/img/base/pymod/export_image_list.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/img/base/pymod/export_image_list.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface_prop.hh:25, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface_handle.hh:24, from /<>/modules/mol/base/pymod/export_surface.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/base/pymod/export_surface.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_map.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/pymod/CMakeFiles/_ost_img.dir/export_map.cc.o -MF CMakeFiles/_ost_img.dir/export_map.cc.o.d -o CMakeFiles/_ost_img.dir/export_map.cc.o -c /<>/modules/img/base/pymod/export_map.cc [ 29%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/filter_clashes.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/filter_clashes.cc.o -MF CMakeFiles/ost_mol_alg.dir/filter_clashes.cc.o.d -o CMakeFiles/ost_mol_alg.dir/filter_clashes.cc.o -c /<>/modules/mol/alg/src/filter_clashes.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/alg/src/filter_clashes.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /<>/modules/mol/alg/src/filter_clashes.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/modules/mol/alg/src/filter_clashes.cc:24: /<>/modules/mol/alg/src/filter_clashes.hh: In member function ‘std::pair ost::mol::alg::StereoChemicalBondViolation::GetAllowedRange() const’: /<>/modules/mol/alg/src/filter_clashes.hh:91:48: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 91 | std::pair GetAllowedRange() const { return allowed_range_; } | ^ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/map.hh:22, from /<>/modules/img/base/pymod/export_map.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/img/base/pymod/export_map.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 30%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_bounding_box.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_bounding_box.cc.o -MF CMakeFiles/_ost_mol.dir/export_bounding_box.cc.o.d -o CMakeFiles/_ost_mol.dir/export_bounding_box.cc.o -c /<>/modules/mol/base/pymod/export_bounding_box.cc [ 32%] Building CXX object modules/img/base/pymod/CMakeFiles/_ost_img.dir/wrap_img.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/base/pymod/CMakeFiles/_ost_img.dir/wrap_img.cc.o -MF CMakeFiles/_ost_img.dir/wrap_img.cc.o.d -o CMakeFiles/_ost_img.dir/wrap_img.cc.o -c /<>/modules/img/base/pymod/wrap_img.cc [ 32%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_query_view_wrapper.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_query_view_wrapper.cc.o -MF CMakeFiles/_ost_mol.dir/export_query_view_wrapper.cc.o.d -o CMakeFiles/_ost_mol.dir/export_query_view_wrapper.cc.o -c /<>/modules/mol/base/pymod/export_query_view_wrapper.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/modules/mol/base/pymod/export_bounding_box.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/base/pymod/export_bounding_box.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 32%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/construct_cbeta.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/construct_cbeta.cc.o -MF CMakeFiles/ost_mol_alg.dir/construct_cbeta.cc.o.d -o CMakeFiles/ost_mol_alg.dir/construct_cbeta.cc.o -c /<>/modules/mol/alg/src/construct_cbeta.cc [ 32%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_torsion.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_torsion.cc.o -MF CMakeFiles/_ost_mol.dir/export_torsion.cc.o.d -o CMakeFiles/_ost_mol.dir/export_torsion.cc.o -c /<>/modules/mol/base/pymod/export_torsion.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /<>/modules/img/base/pymod/wrap_img.cc:33: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/img/base/pymod/wrap_img.cc:27: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 32%] Linking CXX shared module ../../../../stage/lib/python3.12/dist-packages/ost/img/_ost_img.so cd /<>/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_img.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro -shared -o ../../../../stage/lib/python3.12/dist-packages/ost/img/_ost_img.so CMakeFiles/_ost_img.dir/export_data.cc.o CMakeFiles/_ost_img.dir/export_data_algorithm.cc.o CMakeFiles/_ost_img.dir/export_extent.cc.o CMakeFiles/_ost_img.dir/export_image_handle.cc.o CMakeFiles/_ost_img.dir/export_peak.cc.o CMakeFiles/_ost_img.dir/export_phase.cc.o CMakeFiles/_ost_img.dir/export_point.cc.o CMakeFiles/_ost_img.dir/export_progress.cc.o CMakeFiles/_ost_img.dir/export_raster_image.cc.o CMakeFiles/_ost_img.dir/export_size.cc.o CMakeFiles/_ost_img.dir/export_mask.cc.o CMakeFiles/_ost_img.dir/export_image_list.cc.o CMakeFiles/_ost_img.dir/export_map.cc.o CMakeFiles/_ost_img.dir/wrap_img.cc.o -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: ../../../../stage/lib/libost_img.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so.1.83.0 ../../../../stage/lib/libost_info.so.2.5.0 ../../../../stage/lib/libost_base.so.2.5.0 ../../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 cd /<>/obj-arm-linux-gnueabihf/modules/img/base/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/img/base/pymod/__init__.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/img/./__init__.pyc\",\"__init__.py\",doraise=True)" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 32%] Built target _ost_img make -f modules/gfx/src/CMakeFiles/ost_gfx.dir/build.make modules/gfx/src/CMakeFiles/ost_gfx.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/gfx/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/gfx/src /<>/obj-arm-linux-gnueabihf/modules/gfx/src/CMakeFiles/ost_gfx.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/gfx/src/CMakeFiles/ost_gfx.dir/build.make modules/gfx/src/CMakeFiles/ost_gfx.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 32%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/bitmap_io.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/bitmap_io.cc.o -MF CMakeFiles/ost_gfx.dir/bitmap_io.cc.o.d -o CMakeFiles/ost_gfx.dir/bitmap_io.cc.o -c /<>/modules/gfx/src/bitmap_io.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/alg/src/construct_cbeta.cc:4: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/modules/mol/alg/src/construct_cbeta.cc:1: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/modules/mol/base/pymod/export_query_view_wrapper.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/base/pymod/export_query_view_wrapper.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 33%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/trajectory_analysis.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/trajectory_analysis.cc.o -MF CMakeFiles/ost_mol_alg.dir/trajectory_analysis.cc.o.d -o CMakeFiles/ost_mol_alg.dir/trajectory_analysis.cc.o -c /<>/modules/mol/alg/src/trajectory_analysis.cc [ 33%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/exporter.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/exporter.cc.o -MF CMakeFiles/ost_gfx.dir/exporter.cc.o.d -o CMakeFiles/ost_gfx.dir/exporter.cc.o -c /<>/modules/gfx/src/exporter.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/mol/alg/src/trajectory_analysis.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/modules/mol/alg/src/trajectory_analysis.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 33%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_visitor.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_visitor.cc.o -MF CMakeFiles/_ost_mol.dir/export_visitor.cc.o.d -o CMakeFiles/_ost_mol.dir/export_visitor.cc.o -c /<>/modules/mol/base/pymod/export_visitor.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:37, from /<>/modules/gfx/src/exporter.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/stl_tree.h:63, from /usr/include/c++/13/map:62, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:26: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 33%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/structure_analysis.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/structure_analysis.cc.o -MF CMakeFiles/ost_mol_alg.dir/structure_analysis.cc.o.d -o CMakeFiles/ost_mol_alg.dir/structure_analysis.cc.o -c /<>/modules/mol/alg/src/structure_analysis.cc [ 33%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/collada_exporter.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/collada_exporter.cc.o -MF CMakeFiles/ost_gfx.dir/collada_exporter.cc.o.d -o CMakeFiles/ost_gfx.dir/collada_exporter.cc.o -c /<>/modules/gfx/src/collada_exporter.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/alg/src/structure_analysis.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/modules/mol/alg/src/structure_analysis.cc:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/gfx/src/color.hh:31, from /<>/modules/gfx/src/scene.hh:37, from /<>/modules/gfx/src/collada_exporter.cc:28: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/istream:40, from /usr/include/c++/13/sstream:40, from /<>/modules/gfx/src/collada_exporter.cc:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/base/pymod/export_visitor.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/base/pymod/export_visitor.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 33%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/consistency_checks.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/consistency_checks.cc.o -MF CMakeFiles/ost_mol_alg.dir/consistency_checks.cc.o.d -o CMakeFiles/ost_mol_alg.dir/consistency_checks.cc.o -c /<>/modules/mol/alg/src/consistency_checks.cc [ 33%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/color.cc.o -MF CMakeFiles/ost_gfx.dir/color.cc.o.d -o CMakeFiles/ost_gfx.dir/color.cc.o -c /<>/modules/gfx/src/color.cc [ 33%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/wrap_mol.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/wrap_mol.cc.o -MF CMakeFiles/_ost_mol.dir/wrap_mol.cc.o.d -o CMakeFiles/_ost_mol.dir/wrap_mol.cc.o -c /<>/modules/mol/base/pymod/wrap_mol.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/gfx/src/color.hh:31, from /<>/modules/gfx/src/color.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /<>/modules/gfx/src/color.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/chain_view.hh:23, from /<>/modules/mol/alg/src/consistency_checks.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /<>/modules/mol/alg/src/consistency_checks.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 33%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/primitives.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/primitives.cc.o -MF CMakeFiles/ost_gfx.dir/primitives.cc.o.d -o CMakeFiles/ost_gfx.dir/primitives.cc.o -c /<>/modules/gfx/src/primitives.cc [ 33%] Building CXX object modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_entity_property_mapper.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/export_entity_property_mapper.cc.o -MF CMakeFiles/_ost_mol.dir/export_entity_property_mapper.cc.o.d -o CMakeFiles/_ost_mol.dir/export_entity_property_mapper.cc.o -c /<>/modules/mol/base/pymod/export_entity_property_mapper.cc [ 33%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/pdbize.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/pdbize.cc.o -MF CMakeFiles/ost_mol_alg.dir/pdbize.cc.o.d -o CMakeFiles/ost_mol_alg.dir/pdbize.cc.o -c /<>/modules/mol/alg/src/pdbize.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/primitives.hh:22, from /<>/modules/gfx/src/primitives.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec3.hh:22, from /<>/modules/gfx/src/gl_helper.hh:36, from /<>/modules/gfx/src/primitives.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 33%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/entity.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/entity.cc.o -MF CMakeFiles/ost_gfx.dir/entity.cc.o.d -o CMakeFiles/ost_gfx.dir/entity.cc.o -c /<>/modules/gfx/src/entity.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/modules/mol/alg/src/pdbize.hh:22, from /<>/modules/mol/alg/src/pdbize.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/modules/mol/alg/src/pdbize.hh:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/editor_base.hh:27, from /<>/modules/mol/base/pymod/wrap_mol.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/base/pymod/wrap_mol.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 33%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/symmetry_node.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/symmetry_node.cc.o -MF CMakeFiles/ost_gfx.dir/symmetry_node.cc.o.d -o CMakeFiles/ost_gfx.dir/symmetry_node.cc.o -c /<>/modules/gfx/src/symmetry_node.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/modules/gfx/src/entity.cc:36: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/modules/gfx/src/entity.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_property_mapper.hh:29, from /<>/modules/mol/base/pymod/export_entity_property_mapper.cc:3: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/base/pymod/export_entity_property_mapper.cc:1: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_renderer.hh:38, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/trace_renderer_base.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/cartoon_renderer.hh:31, from /<>/modules/gfx/src/entity.cc:39: /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:62:16: warning: ‘virtual void ost::gfx::GfxObj::Apply(ost::gfx::GfxNodeVisitor&, ost::gfx::GfxNodeVisitor::Stack)’ was hidden [-Woverloaded-virtual=] 62 | virtual void Apply(GfxNodeVisitor& v, GfxNodeVisitor::Stack st); | ^~~~~ In file included from /<>/modules/gfx/src/entity.cc:52: /<>/modules/gfx/src/entity.hh:294:8: note: by ‘ost::gfx::Entity::Apply’ 294 | void Apply(const gfx::MapHandleColorOp& op, bool store=true); | ^~~~~ /<>/modules/gfx/src/entity.cc: In member function ‘void ost::gfx::Entity::ColorBy(const String&, const ost::gfx::Color&, const ost::gfx::Color&, ost::mol::Prop::Level)’: /<>/modules/gfx/src/entity.cc:965:72: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 965 | std::pair minmax = this->GetView().GetMinMax(prop, level); | ^ [ 33%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/adjacency_bitmap.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/adjacency_bitmap.cc.o -MF CMakeFiles/ost_mol_alg.dir/adjacency_bitmap.cc.o.d -o CMakeFiles/ost_mol_alg.dir/adjacency_bitmap.cc.o -c /<>/modules/mol/alg/src/adjacency_bitmap.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/gfx/src/symmetry_node.hh:22, from /<>/modules/gfx/src/symmetry_node.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec3.hh:22, from /<>/modules/gfx/src/gl_helper.hh:36, from /<>/modules/gfx/src/symmetry_node.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 33%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/gfx_node.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/gfx_node.cc.o -MF CMakeFiles/ost_gfx.dir/gfx_node.cc.o.d -o CMakeFiles/ost_gfx.dir/gfx_node.cc.o -c /<>/modules/gfx/src/gfx_node.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_factory.hh:32, from /<>/modules/mol/alg/src/adjacency_bitmap.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/module_config.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_factory.hh:31: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 33%] Linking CXX shared module ../../../../stage/lib/python3.12/dist-packages/ost/mol/_ost_mol.so cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_mol.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro -shared -o ../../../../stage/lib/python3.12/dist-packages/ost/mol/_ost_mol.so CMakeFiles/_ost_mol.dir/export_atom.cc.o CMakeFiles/_ost_mol.dir/export_atom_view.cc.o CMakeFiles/_ost_mol.dir/export_bond.cc.o CMakeFiles/_ost_mol.dir/export_chain.cc.o CMakeFiles/_ost_mol.dir/export_chain_view.cc.o CMakeFiles/_ost_mol.dir/export_coord_group.cc.o CMakeFiles/_ost_mol.dir/export_coord_frame.cc.o CMakeFiles/_ost_mol.dir/export_editors.cc.o CMakeFiles/_ost_mol.dir/export_entity.cc.o CMakeFiles/_ost_mol.dir/export_entity_view.cc.o CMakeFiles/_ost_mol.dir/export_property_id.cc.o CMakeFiles/_ost_mol.dir/export_query.cc.o CMakeFiles/_ost_mol.dir/export_residue.cc.o CMakeFiles/_ost_mol.dir/export_residue_view.cc.o CMakeFiles/_ost_mol.dir/export_surface.cc.o CMakeFiles/_ost_mol.dir/export_bounding_box.cc.o CMakeFiles/_ost_mol.dir/export_query_view_wrapper.cc.o CMakeFiles/_ost_mol.dir/export_torsion.cc.o CMakeFiles/_ost_mol.dir/export_visitor.cc.o CMakeFiles/_ost_mol.dir/wrap_mol.cc.o CMakeFiles/_ost_mol.dir/export_entity_property_mapper.cc.o -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: ../../../../stage/lib/libost_mol.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so.1.83.0 ../../../../stage/lib/libost_info.so.2.5.0 ../../../../stage/lib/libost_base.so.2.5.0 ../../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /<>/modules/mol/alg/src/adjacency_bitmap.hh:9, from /<>/modules/mol/alg/src/adjacency_bitmap.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 33%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/contact_overlap.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/contact_overlap.cc.o -MF CMakeFiles/ost_mol_alg.dir/contact_overlap.cc.o.d -o CMakeFiles/ost_mol_alg.dir/contact_overlap.cc.o -c /<>/modules/mol/alg/src/contact_overlap.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/gfx/src/gfx_object_base.hh:26, from /<>/modules/gfx/src/gfx_object.hh:40, from /<>/modules/gfx/src/gfx_node.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /usr/include/boost/config/no_tr1/memory.hpp:21, from /usr/include/boost/get_pointer.hpp:14, from /usr/include/boost/bind/mem_fn.hpp:25, from /usr/include/boost/bind/bind.hpp:26, from /<>/modules/gfx/src/gfx_node.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/mol/base/pymod/__init__.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/./__init__.pyc\",\"__init__.py\",doraise=True)" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 33%] Built target _ost_mol make -f modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/build.make modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/img/alg/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/img/alg/pymod /<>/obj-arm-linux-gnueabihf/modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/build.make modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 33%] Building CXX object modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/wrap_alg.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/wrap_alg.cc.o -MF CMakeFiles/_ost_img_alg.dir/wrap_alg.cc.o.d -o CMakeFiles/_ost_img_alg.dir/wrap_alg.cc.o -c /<>/modules/img/alg/pymod/wrap_alg.cc [ 33%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/gfx_object.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/gfx_object.cc.o -MF CMakeFiles/ost_gfx.dir/gfx_object.cc.o.d -o CMakeFiles/ost_gfx.dir/gfx_object.cc.o -c /<>/modules/gfx/src/gfx_object.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/alg/src/contact_overlap.cc:2: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /<>/modules/mol/alg/src/contact_overlap.cc:1: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /<>/modules/mol/alg/src/contact_overlap.cc:3: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/gfx_prim.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/gfx_prim.cc.o -MF CMakeFiles/ost_gfx.dir/gfx_prim.cc.o.d -o CMakeFiles/ost_gfx.dir/gfx_prim.cc.o -c /<>/modules/gfx/src/gfx_prim.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_property_mapper.hh:29, from /<>/modules/gfx/src/gfx_object.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /<>/modules/gfx/src/gfx_object.cc:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/gfx/src/gfx_prim.hh:28, from /<>/modules/gfx/src/gfx_prim.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/modules/gfx/src/gfx_prim.hh:26: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/gfx_test_object.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/gfx_test_object.cc.o -MF CMakeFiles/ost_gfx.dir/gfx_test_object.cc.o.d -o CMakeFiles/ost_gfx.dir/gfx_test_object.cc.o -c /<>/modules/gfx/src/gfx_test_object.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/auto_correlate.hh:24, from /<>/modules/img/alg/pymod/wrap_alg.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/img/alg/pymod/wrap_alg.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/c++/13/string:54: In member function ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:899:15, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::AtomBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from ‘void ost::mol::alg::CalcContactNodeDegree(const ContactList&)’ at /<>/modules/mol/alg/src/contact_overlap.cc:66:20: /usr/include/c++/13/bits/basic_string.h:1079:16: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::_M_string_length’ may be used uninitialized [-Wmaybe-uninitialized] 1079 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ In file included from /usr/include/boost/variant.hpp:17, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:30: /usr/include/boost/variant/variant.hpp: In function ‘void ost::mol::alg::CalcContactNodeDegree(const ContactList&)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In file included from /usr/include/c++/13/ios:42: In static member function ‘static constexpr void std::char_traits::assign(char_type&, const char_type&)’, inlined from ‘static void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:428:23, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:877:18, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::AtomBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from ‘void ost::mol::alg::CalcContactNodeDegree(const ContactList&)’ at /<>/modules/mol/alg/src/contact_overlap.cc:66:20: /usr/include/c++/13/bits/char_traits.h:358:16: warning: ‘((const std::char_traits::char_type*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[8]’ may be used uninitialized [-Wmaybe-uninitialized] 358 | __c1 = __c2; | ^~~~ /usr/include/boost/variant/variant.hpp: In function ‘void ost::mol::alg::CalcContactNodeDegree(const ContactList&)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In member function ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::AtomBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from ‘void ost::mol::alg::CalcContactNodeDegree(const ContactList&)’ at /<>/modules/mol/alg/src/contact_overlap.cc:66:20: /usr/include/c++/13/bits/basic_string.h:900:24: warning: ‘*(std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::.std::__cxx11::basic_string::::_M_allocated_capacity’ may be used uninitialized [-Wmaybe-uninitialized] 900 | _M_capacity(__str._M_allocated_capacity); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function ‘void ost::mol::alg::CalcContactNodeDegree(const ContactList&)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In member function ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::AtomBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from ‘void ost::mol::alg::CalcContactNodeDegree(const ContactList&)’ at /<>/modules/mol/alg/src/contact_overlap.cc:66:20: /usr/include/c++/13/bits/basic_string.h:900:24: warning: ‘*(std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::.std::__cxx11::basic_string::::_M_allocated_capacity’ may be used uninitialized [-Wmaybe-uninitialized] 900 | _M_capacity(__str._M_allocated_capacity); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function ‘void ost::mol::alg::CalcContactNodeDegree(const ContactList&)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In member function ‘bool std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_is_local() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:869:23, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from ‘void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)’ at /<>/modules/mol/alg/src/contact_overlap.cc:445:21: /usr/include/c++/13/bits/basic_string.h:266:17: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::_M_string_length’ may be used uninitialized [-Wmaybe-uninitialized] 266 | if (_M_string_length > _S_local_capacity) | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function ‘void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In member function ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from ‘void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)’ at /<>/modules/mol/alg/src/contact_overlap.cc:445:21: /usr/include/c++/13/bits/basic_string.h:900:24: warning: ‘*(std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::.std::__cxx11::basic_string::::_M_allocated_capacity’ may be used uninitialized [-Wmaybe-uninitialized] 900 | _M_capacity(__str._M_allocated_capacity); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function ‘void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In static member function ‘static constexpr void std::char_traits::assign(char_type&, const char_type&)’, inlined from ‘static void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:428:23, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:877:18, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from ‘void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)’ at /<>/modules/mol/alg/src/contact_overlap.cc:445:21: /usr/include/c++/13/bits/char_traits.h:358:16: warning: ‘((const std::char_traits::char_type*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[8]’ may be used uninitialized [-Wmaybe-uninitialized] 358 | __c1 = __c2; | ^~~~ /usr/include/boost/variant/variant.hpp: In function ‘void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In member function ‘bool std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_is_local() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:869:23, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from ‘void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)’ at /<>/modules/mol/alg/src/contact_overlap.cc:448:21: /usr/include/c++/13/bits/basic_string.h:266:17: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::_M_string_length’ may be used uninitialized [-Wmaybe-uninitialized] 266 | if (_M_string_length > _S_local_capacity) | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function ‘void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In member function ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from ‘void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)’ at /<>/modules/mol/alg/src/contact_overlap.cc:448:21: /usr/include/c++/13/bits/basic_string.h:900:24: warning: ‘*(std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::.std::__cxx11::basic_string::::_M_allocated_capacity’ may be used uninitialized [-Wmaybe-uninitialized] 900 | _M_capacity(__str._M_allocated_capacity); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function ‘void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In static member function ‘static constexpr void std::char_traits::assign(char_type&, const char_type&)’, inlined from ‘static void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:428:23, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:877:18, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from ‘void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)’ at /<>/modules/mol/alg/src/contact_overlap.cc:448:21: /usr/include/c++/13/bits/char_traits.h:358:16: warning: ‘((const std::char_traits::char_type*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[8]’ may be used uninitialized [-Wmaybe-uninitialized] 358 | __c1 = __c2; | ^~~~ /usr/include/boost/variant/variant.hpp: In function ‘void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In member function ‘bool std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_is_local() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:869:23, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from ‘void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)’ at /<>/modules/mol/alg/src/contact_overlap.cc:453:23: /usr/include/c++/13/bits/basic_string.h:266:17: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::_M_string_length’ may be used uninitialized [-Wmaybe-uninitialized] 266 | if (_M_string_length > _S_local_capacity) | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function ‘void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In member function ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from ‘void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)’ at /<>/modules/mol/alg/src/contact_overlap.cc:453:23: /usr/include/c++/13/bits/basic_string.h:900:24: warning: ‘*(std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::.std::__cxx11::basic_string::::_M_allocated_capacity’ may be used uninitialized [-Wmaybe-uninitialized] 900 | _M_capacity(__str._M_allocated_capacity); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function ‘void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In static member function ‘static constexpr void std::char_traits::assign(char_type&, const char_type&)’, inlined from ‘static void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:428:23, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:877:18, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from ‘void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)’ at /<>/modules/mol/alg/src/contact_overlap.cc:453:23: /usr/include/c++/13/bits/char_traits.h:358:16: warning: ‘((const std::char_traits::char_type*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[8]’ may be used uninitialized [-Wmaybe-uninitialized] 358 | __c1 = __c2; | ^~~~ /usr/include/boost/variant/variant.hpp: In function ‘void ost::mol::alg::DomainsFromCOM(const SimilarityMatrix&, ost::seq::AlignmentHandle, Real, int, int)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ [ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/input.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/input.cc.o -MF CMakeFiles/ost_gfx.dir/input.cc.o.d -o CMakeFiles/ost_gfx.dir/input.cc.o -c /<>/modules/gfx/src/input.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/gfx/src/gfx_object_base.hh:26, from /<>/modules/gfx/src/gfx_object.hh:40, from /<>/modules/gfx/src/gfx_test_object.hh:28, from /<>/modules/gfx/src/gfx_test_object.cc:31: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/locale:41, from /usr/include/boost/filesystem/detail/path_traits.hpp:18, from /usr/include/boost/filesystem/path.hpp:21, from /usr/include/boost/filesystem/operations.hpp:20, from /<>/modules/gfx/src/gfx_test_object.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/modules/gfx/src/gfx_object.hh:124:31: warning: ‘virtual geom::AlignedCuboid ost::gfx::GfxObj::GetBoundingBox(bool) const’ was hidden [-Woverloaded-virtual=] 124 | virtual geom::AlignedCuboid GetBoundingBox(bool use_tf=false) const; | ^~~~~~~~~~~~~~ /<>/modules/gfx/src/gfx_test_object.hh:40:31: note: by ‘virtual geom::AlignedCuboid ost::gfx::GfxTestObj::GetBoundingBox() const’ 40 | virtual geom::AlignedCuboid GetBoundingBox() const; | ^~~~~~~~~~~~~~ [ 34%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/domain_find.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/domain_find.cc.o -MF CMakeFiles/ost_mol_alg.dir/domain_find.cc.o.d -o CMakeFiles/ost_mol_alg.dir/domain_find.cc.o -c /<>/modules/mol/alg/src/domain_find.cc [ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/prim_list.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/prim_list.cc.o -MF CMakeFiles/ost_gfx.dir/prim_list.cc.o.d -o CMakeFiles/ost_gfx.dir/prim_list.cc.o -c /<>/modules/gfx/src/prim_list.cc [ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/scene.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/scene.cc.o -MF CMakeFiles/ost_gfx.dir/scene.cc.o.d -o CMakeFiles/ost_gfx.dir/scene.cc.o -c /<>/modules/gfx/src/scene.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/gfx/src/color.hh:31, from /<>/modules/gfx/src/scene.hh:37, from /<>/modules/gfx/src/prim_list.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/atom_handle.hh:22, from /<>/modules/gfx/src/prim_list.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_factory.hh:32, from /<>/modules/mol/alg/src/domain_find.cc:3: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/thread/exceptions.hpp:20, from /usr/include/boost/thread/pthread/thread_data.hpp:10, from /usr/include/boost/thread/thread_only.hpp:17, from /usr/include/boost/thread/thread.hpp:12, from /usr/include/boost/thread.hpp:13, from /<>/modules/mol/alg/src/domain_find.cc:1: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/gfx/src/scene.cc:40: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /<>/modules/gfx/src/scene.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /<>/modules/mol/alg/src/domain_find.cc:9: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/modules/gfx/src/scene.cc:49: /<>/modules/gfx/src/gfx_object.hh:124:31: warning: ‘virtual geom::AlignedCuboid ost::gfx::GfxObj::GetBoundingBox(bool) const’ was hidden [-Woverloaded-virtual=] 124 | virtual geom::AlignedCuboid GetBoundingBox(bool use_tf=false) const; | ^~~~~~~~~~~~~~ In file included from /<>/modules/gfx/src/scene.cc:50: /<>/modules/gfx/src/gfx_test_object.hh:40:31: note: by ‘virtual geom::AlignedCuboid ost::gfx::GfxTestObj::GetBoundingBox() const’ 40 | virtual geom::AlignedCuboid GetBoundingBox() const; | ^~~~~~~~~~~~~~ [ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/selection.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/selection.cc.o -MF CMakeFiles/ost_gfx.dir/selection.cc.o.d -o CMakeFiles/ost_gfx.dir/selection.cc.o -c /<>/modules/gfx/src/selection.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/gfx/src/selection.hh:26, from /<>/modules/gfx/src/selection.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/surface.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/surface.cc.o -MF CMakeFiles/ost_gfx.dir/surface.cc.o.d -o CMakeFiles/ost_gfx.dir/surface.cc.o -c /<>/modules/gfx/src/surface.cc [ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/gradient.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/gradient.cc.o -MF CMakeFiles/ost_gfx.dir/gradient.cc.o.d -o CMakeFiles/ost_gfx.dir/gradient.cc.o -c /<>/modules/gfx/src/gradient.cc [ 34%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/similarity_matrix.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/similarity_matrix.cc.o -MF CMakeFiles/ost_mol_alg.dir/similarity_matrix.cc.o.d -o CMakeFiles/ost_mol_alg.dir/similarity_matrix.cc.o -c /<>/modules/mol/alg/src/similarity_matrix.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/gfx/src/surface.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/stl_tree.h:63, from /usr/include/c++/13/map:62, from /<>/modules/gfx/src/surface.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/gfx/src/color.hh:31, from /<>/modules/gfx/src/gradient.hh:28, from /<>/modules/gfx/src/gradient.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/modules/gfx/src/gradient.hh:26: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/modules/gfx/src/gfx_object_base.hh:34, from /<>/modules/gfx/src/gfx_object.hh:40, from /<>/modules/gfx/src/surface.hh:32, from /<>/modules/gfx/src/surface.cc:28: /<>/modules/gfx/src/gfx_node.hh:55:16: warning: ‘virtual void ost::gfx::GfxNode::DeepSwap(ost::gfx::GfxNode&)’ was hidden [-Woverloaded-virtual=] 55 | virtual void DeepSwap(GfxNode& n); | ^~~~~~~~ /<>/modules/gfx/src/gfx_object.hh:58:16: note: by ‘virtual void ost::gfx::GfxObj::DeepSwap(ost::gfx::GfxObj&)’ 58 | virtual void DeepSwap(GfxObj& go); | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/modules/mol/alg/src/similarity_matrix.hh:7, from /<>/modules/mol/alg/src/similarity_matrix.cc:1: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/istream:40, from /usr/include/c++/13/fstream:40, from /<>/modules/mol/alg/src/similarity_matrix.hh:5: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/gradient_manager.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/gradient_manager.cc.o -MF CMakeFiles/ost_gfx.dir/gradient_manager.cc.o.d -o CMakeFiles/ost_gfx.dir/gradient_manager.cc.o -c /<>/modules/gfx/src/gradient_manager.cc [ 34%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/accessibility.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/accessibility.cc.o -MF CMakeFiles/ost_mol_alg.dir/accessibility.cc.o.d -o CMakeFiles/ost_mol_alg.dir/accessibility.cc.o -c /<>/modules/mol/alg/src/accessibility.cc [ 34%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/vertex_array.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/vertex_array.cc.o -MF CMakeFiles/ost_gfx.dir/vertex_array.cc.o.d -o CMakeFiles/ost_gfx.dir/vertex_array.cc.o -c /<>/modules/gfx/src/vertex_array.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info_group.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:32, from /<>/modules/gfx/src/gradient_manager.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/locale:41, from /usr/include/boost/filesystem/detail/path_traits.hpp:18, from /usr/include/boost/filesystem/path.hpp:21, from /usr/include/boost/filesystem/operations.hpp:20, from /<>/modules/gfx/src/gradient_manager.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/accessibility.hh:23, from /<>/modules/mol/alg/src/accessibility.cc:1: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:64: /usr/include/c++/13/bits/stl_pair.h: In instantiation of ‘constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = float&; _T2 = float&; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp>::type = float; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp2>::type = float]’: /<>/modules/mol/alg/src/accessibility.cc:312:40: required from here /usr/include/c++/13/bits/stl_pair.h:922:5: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 922 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ [ 35%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/vertex_array_helper.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/vertex_array_helper.cc.o -MF CMakeFiles/ost_gfx.dir/vertex_array_helper.cc.o.d -o CMakeFiles/ost_gfx.dir/vertex_array_helper.cc.o -c /<>/modules/gfx/src/vertex_array_helper.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/gfx/src/vertex_array.hh:34, from /<>/modules/gfx/src/vertex_array.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /usr/include/boost/format.hpp:17, from /<>/modules/gfx/src/vertex_array.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 35%] Building CXX object modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/export_filter.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/export_filter.cc.o -MF CMakeFiles/_ost_img_alg.dir/export_filter.cc.o.d -o CMakeFiles/_ost_img_alg.dir/export_filter.cc.o -c /<>/modules/img/alg/pymod/export_filter.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/gfx/src/vertex_array_helper.hh:23, from /<>/modules/gfx/src/vertex_array_helper.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/modules/gfx/src/vertex_array_helper.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/modules/gfx/src/vertex_array.cc:1311:8: warning: ‘geom::Vec3 ost::gfx::{anonymous}::make_aaline_edge(const geom::Vec2&, const geom::Vec2&, float)’ defined but not used [-Wunused-function] 1311 | Vec3 make_aaline_edge(const Vec2& c1, const Vec2& c0, float s) | ^~~~~~~~~~~~~~~~ /<>/modules/gfx/src/vertex_array.cc:1239:8: warning: ‘void ost::gfx::{anonymous}::render_aalines(AALineList&, float, float)’ defined but not used [-Wunused-function] 1239 | void render_aalines(AALineList& line_list, float w, float r) | ^~~~~~~~~~~~~~ In file included from /usr/include/c++/13/string:54, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/istream:40, from /usr/include/c++/13/sstream:40, from /usr/include/c++/13/complex:45, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:24: In member function ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:899:15, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38: /usr/include/c++/13/bits/basic_string.h:1079:16: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::_M_string_length’ may be used uninitialized [-Wmaybe-uninitialized] 1079 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ In file included from /usr/include/boost/variant.hpp:17, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_base.hh:25, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:27: /usr/include/boost/variant/variant.hpp: In member function ‘void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In member function ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38: /usr/include/c++/13/bits/basic_string.h:900:24: warning: ‘*(std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::.std::__cxx11::basic_string::::_M_allocated_capacity’ may be used uninitialized [-Wmaybe-uninitialized] 900 | _M_capacity(__str._M_allocated_capacity); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In member function ‘void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In member function ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38: /usr/include/c++/13/bits/basic_string.h:900:24: warning: ‘*(std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::.std::__cxx11::basic_string::::_M_allocated_capacity’ may be used uninitialized [-Wmaybe-uninitialized] 900 | _M_capacity(__str._M_allocated_capacity); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In member function ‘void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ [ 35%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/material.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/material.cc.o -MF CMakeFiles/ost_gfx.dir/material.cc.o.d -o CMakeFiles/ost_gfx.dir/material.cc.o -c /<>/modules/gfx/src/material.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/gfx/src/color.hh:31, from /<>/modules/gfx/src/material.hh:22, from /<>/modules/gfx/src/material.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/iterator:61, from /usr/include/boost/operators.hpp:98, from /<>/modules/gfx/src/color.hh:28: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 35%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/povray.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/povray.cc.o -MF CMakeFiles/ost_gfx.dir/povray.cc.o.d -o CMakeFiles/ost_gfx.dir/povray.cc.o -c /<>/modules/gfx/src/povray.cc In member function ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:899:15, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from ‘Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)’ at /<>/modules/mol/alg/src/accessibility.cc:778:21: /usr/include/c++/13/bits/basic_string.h:1079:16: warning: ‘((__vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]’ may be used uninitialized [-Wmaybe-uninitialized] 1079 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function ‘Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In member function ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:899:15, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from ‘Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)’ at /<>/modules/mol/alg/src/accessibility.cc:778:21: /usr/include/c++/13/bits/basic_string.h:1079:16: warning: ‘((__vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]’ may be used uninitialized [-Wmaybe-uninitialized] 1079 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function ‘Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In member function ‘bool std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_is_local() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:869:23, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::AtomBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from ‘Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)’ at /<>/modules/mol/alg/src/accessibility.cc:785:32: /usr/include/c++/13/bits/basic_string.h:266:17: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::_M_string_length’ may be used uninitialized [-Wmaybe-uninitialized] 266 | if (_M_string_length > _S_local_capacity) | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function ‘Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In member function ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::AtomBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from ‘Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)’ at /<>/modules/mol/alg/src/accessibility.cc:785:32: /usr/include/c++/13/bits/basic_string.h:900:24: warning: ‘*(std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::.std::__cxx11::basic_string::::_M_allocated_capacity’ may be used uninitialized [-Wmaybe-uninitialized] 900 | _M_capacity(__str._M_allocated_capacity); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function ‘Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In file included from /usr/include/c++/13/ios:42: In static member function ‘static constexpr void std::char_traits::assign(char_type&, const char_type&)’, inlined from ‘static void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:428:23, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:877:18, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::AtomBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from ‘Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)’ at /<>/modules/mol/alg/src/accessibility.cc:785:32: /usr/include/c++/13/bits/char_traits.h:358:16: warning: ‘((const std::char_traits::char_type*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[8]’ may be used uninitialized [-Wmaybe-uninitialized] 358 | __c1 = __c2; | ^~~~ /usr/include/boost/variant/variant.hpp: In function ‘Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In member function ‘bool std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_is_local() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:869:23, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from ‘Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)’ at /<>/modules/mol/alg/src/accessibility.cc:788:21: /usr/include/c++/13/bits/basic_string.h:266:17: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::_M_string_length’ may be used uninitialized [-Wmaybe-uninitialized] 266 | if (_M_string_length > _S_local_capacity) | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function ‘Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In member function ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from ‘Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)’ at /<>/modules/mol/alg/src/accessibility.cc:788:21: /usr/include/c++/13/bits/basic_string.h:900:24: warning: ‘*(std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::.std::__cxx11::basic_string::::_M_allocated_capacity’ may be used uninitialized [-Wmaybe-uninitialized] 900 | _M_capacity(__str._M_allocated_capacity); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function ‘Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In static member function ‘static constexpr void std::char_traits::assign(char_type&, const char_type&)’, inlined from ‘static void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:428:23, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:877:18, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from ‘Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)’ at /<>/modules/mol/alg/src/accessibility.cc:788:21: /usr/include/c++/13/bits/char_traits.h:358:16: warning: ‘((const std::char_traits::char_type*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[8]’ may be used uninitialized [-Wmaybe-uninitialized] 358 | __c1 = __c2; | ^~~~ /usr/include/boost/variant/variant.hpp: In function ‘Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In member function ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:899:15, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from ‘Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)’ at /<>/modules/mol/alg/src/accessibility.cc:803:35: /usr/include/c++/13/bits/basic_string.h:1079:16: warning: ‘((__vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]’ may be used uninitialized [-Wmaybe-uninitialized] 1079 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function ‘Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In member function ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:899:15, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from ‘Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)’ at /<>/modules/mol/alg/src/accessibility.cc:803:35: /usr/include/c++/13/bits/basic_string.h:1079:16: warning: ‘((__vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]’ may be used uninitialized [-Wmaybe-uninitialized] 1079 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function ‘Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In member function ‘bool std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_is_local() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:869:23, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from ‘Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)’ at /<>/modules/mol/alg/src/accessibility.cc:808:35: /usr/include/c++/13/bits/basic_string.h:266:17: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::_M_string_length’ may be used uninitialized [-Wmaybe-uninitialized] 266 | if (_M_string_length > _S_local_capacity) | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function ‘Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In member function ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from ‘Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)’ at /<>/modules/mol/alg/src/accessibility.cc:808:35: /usr/include/c++/13/bits/basic_string.h:900:24: warning: ‘*(std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::.std::__cxx11::basic_string::::_M_allocated_capacity’ may be used uninitialized [-Wmaybe-uninitialized] 900 | _M_capacity(__str._M_allocated_capacity); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function ‘Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In static member function ‘static constexpr void std::char_traits::assign(char_type&, const char_type&)’, inlined from ‘static void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:428:23, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:877:18, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::ResidueBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from ‘Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)’ at /<>/modules/mol/alg/src/accessibility.cc:808:35: /usr/include/c++/13/bits/char_traits.h:358:16: warning: ‘((const std::char_traits::char_type*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[8]’ may be used uninitialized [-Wmaybe-uninitialized] 358 | __c1 = __c2; | ^~~~ /usr/include/boost/variant/variant.hpp: In function ‘Real {anonymous}::SetAccessibilityProps(ost::mol::EntityView&, ost::mol::AtomViewList&, const std::vector&, const String&, const String&, const String&, ost::mol::alg::AccessibilityAlgorithm)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/gfx/src/color.hh:31, from /<>/modules/gfx/src/povray.hh:31, from /<>/modules/gfx/src/povray.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/istream:40, from /usr/include/c++/13/sstream:40, from /<>/modules/gfx/src/povray.cc:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/gaussian.hh:36, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/filter.hh:30, from /<>/modules/img/alg/pymod/export_filter.cc:30: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/img/alg/pymod/export_filter.cc:27: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 35%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/sec_struct.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/sec_struct.cc.o -MF CMakeFiles/ost_mol_alg.dir/sec_struct.cc.o.d -o CMakeFiles/ost_mol_alg.dir/sec_struct.cc.o -c /<>/modules/mol/alg/src/sec_struct.cc [ 35%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/gost_exporter.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/gost_exporter.cc.o -MF CMakeFiles/ost_gfx.dir/gost_exporter.cc.o.d -o CMakeFiles/ost_gfx.dir/gost_exporter.cc.o -c /<>/modules/gfx/src/gost_exporter.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_struct.hh:25, from /<>/modules/mol/alg/src/sec_struct.cc:1: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_struct.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:64: /usr/include/c++/13/bits/stl_pair.h: In instantiation of ‘constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = float; _T2 = float; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp>::type = float; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp2>::type = float]’: /<>/modules/mol/alg/src/sec_struct.cc:567:31: required from here /usr/include/c++/13/bits/stl_pair.h:922:5: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 922 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/gfx/src/color.hh:31, from /<>/modules/gfx/src/scene.hh:37, from /<>/modules/gfx/src/gost_exporter.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/istream:40, from /usr/include/c++/13/sstream:40, from /<>/modules/gfx/src/gost_exporter.cc:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In constructor ‘{anonymous}::ExtendedBridge::ExtendedBridge({anonymous}::ExtendedBridge&&)’, inlined from ‘void std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = {anonymous}::ExtendedBridge; _Args = {{anonymous}::ExtendedBridge}; _Tp = {anonymous}::ExtendedBridge]’ at /usr/include/c++/13/bits/new_allocator.h:191:4, inlined from ‘static void std::allocator_traits >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = {anonymous}::ExtendedBridge; _Args = {{anonymous}::ExtendedBridge}; _Tp = {anonymous}::ExtendedBridge]’ at /usr/include/c++/13/bits/alloc_traits.h:538:17, inlined from ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {{anonymous}::ExtendedBridge}; _Tp = {anonymous}::ExtendedBridge; _Alloc = std::allocator<{anonymous}::ExtendedBridge>]’ at /usr/include/c++/13/bits/vector.tcc:117:30, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = {anonymous}::ExtendedBridge; _Alloc = std::allocator<{anonymous}::ExtendedBridge>]’ at /usr/include/c++/13/bits/stl_vector.h:1299:21, inlined from ‘bool {anonymous}::AddIfValid(int, int, int, int, const std::vector&, bool, std::vector&)’ at /<>/modules/mol/alg/src/sec_struct.cc:87:33: /<>/modules/mol/alg/src/sec_struct.cc:10:8: warning: ‘.{anonymous}::ExtendedBridge::parallel’ may be used uninitialized [-Wmaybe-uninitialized] 10 | struct ExtendedBridge { | ^~~~~~~~~~~~~~ /<>/modules/mol/alg/src/sec_struct.cc: In function ‘bool {anonymous}::AddIfValid(int, int, int, int, const std::vector&, bool, std::vector&)’: /<>/modules/mol/alg/src/sec_struct.cc:87:49: note: ‘’ declared here 87 | extended_bridges.push_back(ExtendedBridge()); | ^ In constructor ‘{anonymous}::ExtendedBridge::ExtendedBridge({anonymous}::ExtendedBridge&&)’, inlined from ‘void std::__new_allocator<_Tp>::construct(_Up*, _Args&& ...) [with _Up = {anonymous}::ExtendedBridge; _Args = {{anonymous}::ExtendedBridge}; _Tp = {anonymous}::ExtendedBridge]’ at /usr/include/c++/13/bits/new_allocator.h:191:4, inlined from ‘static void std::allocator_traits >::construct(allocator_type&, _Up*, _Args&& ...) [with _Up = {anonymous}::ExtendedBridge; _Args = {{anonymous}::ExtendedBridge}; _Tp = {anonymous}::ExtendedBridge]’ at /usr/include/c++/13/bits/alloc_traits.h:538:17, inlined from ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {{anonymous}::ExtendedBridge}; _Tp = {anonymous}::ExtendedBridge; _Alloc = std::allocator<{anonymous}::ExtendedBridge>]’ at /usr/include/c++/13/bits/vector.tcc:468:28, inlined from ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {{anonymous}::ExtendedBridge}; _Tp = {anonymous}::ExtendedBridge; _Alloc = std::allocator<{anonymous}::ExtendedBridge>]’ at /usr/include/c++/13/bits/vector.tcc:123:21, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = {anonymous}::ExtendedBridge; _Alloc = std::allocator<{anonymous}::ExtendedBridge>]’ at /usr/include/c++/13/bits/stl_vector.h:1299:21, inlined from ‘bool {anonymous}::AddIfValid(int, int, int, int, const std::vector&, bool, std::vector&)’ at /<>/modules/mol/alg/src/sec_struct.cc:87:33: /<>/modules/mol/alg/src/sec_struct.cc:10:8: warning: ‘.{anonymous}::ExtendedBridge::parallel’ may be used uninitialized [-Wmaybe-uninitialized] 10 | struct ExtendedBridge { | ^~~~~~~~~~~~~~ /<>/modules/mol/alg/src/sec_struct.cc: In function ‘bool {anonymous}::AddIfValid(int, int, int, int, const std::vector&, bool, std::vector&)’: /<>/modules/mol/alg/src/sec_struct.cc:87:49: note: ‘’ declared here 87 | extended_bridges.push_back(ExtendedBridge()); | ^ [ 35%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/texture.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/texture.cc.o -MF CMakeFiles/ost_gfx.dir/texture.cc.o.d -o CMakeFiles/ost_gfx.dir/texture.cc.o -c /<>/modules/gfx/src/texture.cc [ 35%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/color_op.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/color_op.cc.o -MF CMakeFiles/ost_gfx.dir/color_ops/color_op.cc.o.d -o CMakeFiles/ost_gfx.dir/color_ops/color_op.cc.o -c /<>/modules/gfx/src/color_ops/color_op.cc [ 37%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/nonstandard.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/nonstandard.cc.o -MF CMakeFiles/ost_mol_alg.dir/nonstandard.cc.o.d -o CMakeFiles/ost_mol_alg.dir/nonstandard.cc.o -c /<>/modules/mol/alg/src/nonstandard.cc [ 37%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/by_element_color_op.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/by_element_color_op.cc.o -MF CMakeFiles/ost_gfx.dir/color_ops/by_element_color_op.cc.o.d -o CMakeFiles/ost_gfx.dir/color_ops/by_element_color_op.cc.o -c /<>/modules/gfx/src/color_ops/by_element_color_op.cc [ 37%] Building CXX object modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/export_normalizer.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/export_normalizer.cc.o -MF CMakeFiles/_ost_img_alg.dir/export_normalizer.cc.o.d -o CMakeFiles/_ost_img_alg.dir/export_normalizer.cc.o -c /<>/modules/img/alg/pymod/export_normalizer.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/color_op.hh:24, from /<>/modules/gfx/src/color_ops/color_op.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/color_op.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/conop.hh:24, from /<>/modules/mol/alg/src/nonstandard.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /<>/modules/mol/alg/src/nonstandard.cc:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info_group.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:32, from /<>/modules/gfx/src/color_ops/by_element_color_op.hh:24, from /<>/modules/gfx/src/color_ops/by_element_color_op.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:18, from /usr/include/boost/shared_ptr.hpp:17, from /<>/modules/gfx/src/color_ops/by_element_color_op.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 37%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/by_chain_color_op.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/by_chain_color_op.cc.o -MF CMakeFiles/ost_gfx.dir/color_ops/by_chain_color_op.cc.o.d -o CMakeFiles/ost_gfx.dir/color_ops/by_chain_color_op.cc.o -c /<>/modules/gfx/src/color_ops/by_chain_color_op.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_renderer.hh:38, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:41, from /<>/modules/gfx/src/color_ops/by_element_color_op.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:62:16: warning: ‘virtual void ost::gfx::GfxObj::Apply(ost::gfx::GfxNodeVisitor&, ost::gfx::GfxNodeVisitor::Stack)’ was hidden [-Woverloaded-virtual=] 62 | virtual void Apply(GfxNodeVisitor& v, GfxNodeVisitor::Stack st); | ^~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:294:8: note: by ‘ost::gfx::Entity::Apply’ 294 | void Apply(const gfx::MapHandleColorOp& op, bool store=true); | ^~~~~ [ 37%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/molck.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/molck.cc.o -MF CMakeFiles/ost_mol_alg.dir/molck.cc.o.d -o CMakeFiles/ost_mol_alg.dir/molck.cc.o -c /<>/modules/mol/alg/src/molck.cc [ 37%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/uniform_color_op.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/uniform_color_op.cc.o -MF CMakeFiles/ost_gfx.dir/color_ops/uniform_color_op.cc.o.d -o CMakeFiles/ost_gfx.dir/color_ops/uniform_color_op.cc.o -c /<>/modules/gfx/src/color_ops/uniform_color_op.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info_group.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:32, from /<>/modules/gfx/src/color_ops/by_chain_color_op.hh:23, from /<>/modules/gfx/src/color_ops/by_chain_color_op.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /<>/modules/gfx/src/color_ops/by_chain_color_op.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/xcs_editor.hh:26, from /<>/modules/mol/alg/src/molck.cc:1: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/xcs_editor.hh:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_renderer.hh:38, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:41, from /<>/modules/gfx/src/color_ops/by_chain_color_op.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:62:16: warning: ‘virtual void ost::gfx::GfxObj::Apply(ost::gfx::GfxNodeVisitor&, ost::gfx::GfxNodeVisitor::Stack)’ was hidden [-Woverloaded-virtual=] 62 | virtual void Apply(GfxNodeVisitor& v, GfxNodeVisitor::Stack st); | ^~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:294:8: note: by ‘ost::gfx::Entity::Apply’ 294 | void Apply(const gfx::MapHandleColorOp& op, bool store=true); | ^~~~~ In file included from /<>/modules/mol/alg/src/molck.cc:4: /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/amino_acids.hh:61:42: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 61 | class AminoAcidSetIterator : public std::iterator>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:29, from /<>/modules/gfx/src/color_ops/uniform_color_op.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:18, from /usr/include/boost/shared_ptr.hpp:17, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/dyn_cast.hh:22, from /<>/modules/gfx/src/color_ops/uniform_color_op.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/normalizer_impl.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/norm_linear.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/norm.hh:30, from /<>/modules/img/alg/pymod/export_normalizer.cc:30: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/img/alg/pymod/export_normalizer.cc:27: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 37%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/gradient_color_op.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/gradient_color_op.cc.o -MF CMakeFiles/ost_gfx.dir/color_ops/gradient_color_op.cc.o.d -o CMakeFiles/ost_gfx.dir/color_ops/gradient_color_op.cc.o -c /<>/modules/gfx/src/color_ops/gradient_color_op.cc [ 37%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/entity_view_color_op.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/entity_view_color_op.cc.o -MF CMakeFiles/ost_gfx.dir/color_ops/entity_view_color_op.cc.o.d -o CMakeFiles/ost_gfx.dir/color_ops/entity_view_color_op.cc.o -c /<>/modules/gfx/src/color_ops/entity_view_color_op.cc [ 37%] Building CXX object modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/export_transcendentals.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/export_transcendentals.cc.o -MF CMakeFiles/_ost_img_alg.dir/export_transcendentals.cc.o.d -o CMakeFiles/_ost_img_alg.dir/export_transcendentals.cc.o -c /<>/modules/img/alg/pymod/export_transcendentals.cc [ 37%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/find_membrane.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/find_membrane.cc.o -MF CMakeFiles/ost_mol_alg.dir/find_membrane.cc.o.d -o CMakeFiles/ost_mol_alg.dir/find_membrane.cc.o -c /<>/modules/mol/alg/src/find_membrane.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:29, from /<>/modules/gfx/src/color_ops/gradient_color_op.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:29, from /<>/modules/gfx/src/color_ops/entity_view_color_op.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/find_membrane.hh:22, from /<>/modules/mol/alg/src/find_membrane.cc:1: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 38%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/basic_gradient_color_op.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/basic_gradient_color_op.cc.o -MF CMakeFiles/ost_gfx.dir/color_ops/basic_gradient_color_op.cc.o.d -o CMakeFiles/ost_gfx.dir/color_ops/basic_gradient_color_op.cc.o -c /<>/modules/gfx/src/color_ops/basic_gradient_color_op.cc [ 38%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/gradient_level_color_op.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/gradient_level_color_op.cc.o -MF CMakeFiles/ost_gfx.dir/color_ops/gradient_level_color_op.cc.o.d -o CMakeFiles/ost_gfx.dir/color_ops/gradient_level_color_op.cc.o -c /<>/modules/gfx/src/color_ops/gradient_level_color_op.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info_group.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:32, from /<>/modules/gfx/src/color_ops/basic_gradient_color_op.hh:22, from /<>/modules/gfx/src/color_ops/basic_gradient_color_op.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info_handle.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:31: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/transcendentals.hh:34, from /<>/modules/img/alg/pymod/export_transcendentals.cc:28: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/img/alg/pymod/export_transcendentals.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/surface.hh:32, from /<>/modules/gfx/src/color_ops/basic_gradient_color_op.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:62:16: warning: ‘virtual void ost::gfx::GfxObj::Apply(ost::gfx::GfxNodeVisitor&, ost::gfx::GfxNodeVisitor::Stack)’ was hidden [-Woverloaded-virtual=] 62 | virtual void Apply(GfxNodeVisitor& v, GfxNodeVisitor::Stack st); | ^~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/surface.hh:102:8: note: by ‘ost::gfx::Surface::Apply’ 102 | void Apply(const gfx::MapHandleColorOp& op, bool store=true); | ^~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:29, from /<>/modules/gfx/src/color_ops/gradient_level_color_op.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:18, from /usr/include/boost/shared_ptr.hpp:17, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/dyn_cast.hh:22, from /<>/modules/gfx/src/color_ops/gradient_level_color_op.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 38%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/entity_renderer.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/entity_renderer.cc.o -MF CMakeFiles/ost_gfx.dir/impl/entity_renderer.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/entity_renderer.cc.o -c /<>/modules/gfx/src/impl/entity_renderer.cc [ 38%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/entity_detail.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/entity_detail.cc.o -MF CMakeFiles/ost_gfx.dir/impl/entity_detail.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/entity_detail.cc.o -c /<>/modules/gfx/src/impl/entity_detail.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/view_op.hh:29, from /<>/modules/gfx/src/impl/entity_renderer.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec3.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gl_helper.hh:36, from /<>/modules/gfx/src/impl/entity_renderer.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 38%] Building CXX object modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/export_polar.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_img_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/export_polar.cc.o -MF CMakeFiles/_ost_img_alg.dir/export_polar.cc.o.d -o CMakeFiles/_ost_img_alg.dir/export_polar.cc.o -c /<>/modules/img/alg/pymod/export_polar.cc [ 38%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/cartoon_renderer.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/cartoon_renderer.cc.o -MF CMakeFiles/ost_gfx.dir/impl/cartoon_renderer.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/cartoon_renderer.cc.o -c /<>/modules/gfx/src/impl/cartoon_renderer.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:37, from /<>/modules/gfx/src/impl/entity_detail.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/atom_view.hh:25, from /<>/modules/gfx/src/impl/entity_detail.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/c++/13/string:54, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/istream:40, from /usr/include/c++/13/sstream:40, from /usr/include/c++/13/complex:45, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:24: In member function ‘bool std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_M_is_local() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:869:23, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::AtomBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from ‘ost::mol::alg::FindMemParam ost::mol::alg::FindMembrane(ost::mol::EntityView&, bool, bool)’ at /<>/modules/mol/alg/src/find_membrane.cc:1038:20: /usr/include/c++/13/bits/basic_string.h:266:17: warning: ‘*(const std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::_M_string_length’ may be used uninitialized [-Wmaybe-uninitialized] 266 | if (_M_string_length > _S_local_capacity) | ^~~~~~~~~~~~~~~~ In file included from /usr/include/boost/variant.hpp:17, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:30: /usr/include/boost/variant/variant.hpp: In function ‘ost::mol::alg::FindMemParam ost::mol::alg::FindMembrane(ost::mol::EntityView&, bool, bool)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In member function ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::AtomBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from ‘ost::mol::alg::FindMemParam ost::mol::alg::FindMembrane(ost::mol::EntityView&, bool, bool)’ at /<>/modules/mol/alg/src/find_membrane.cc:1038:20: /usr/include/c++/13/bits/basic_string.h:900:24: warning: ‘*(std::__cxx11::basic_string, std::allocator >*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)).std::__cxx11::basic_string::.std::__cxx11::basic_string::::_M_allocated_capacity’ may be used uninitialized [-Wmaybe-uninitialized] 900 | _M_capacity(__str._M_allocated_capacity); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In function ‘ost::mol::alg::FindMemParam ost::mol::alg::FindMembrane(ost::mol::EntityView&, bool, bool)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In file included from /usr/include/c++/13/ios:42: In static member function ‘static constexpr void std::char_traits::assign(char_type&, const char_type&)’, inlined from ‘static void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::_S_copy(_CharT*, const _CharT*, size_type) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:428:23, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:877:18, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = float; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetFloatProp(const String&, Real) [with H = ost::mol::AtomBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:358:38, inlined from ‘ost::mol::alg::FindMemParam ost::mol::alg::FindMembrane(ost::mol::EntityView&, bool, bool)’ at /<>/modules/mol/alg/src/find_membrane.cc:1038:20: /usr/include/c++/13/bits/char_traits.h:358:16: warning: ‘((const std::char_traits::char_type*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[8]’ may be used uninitialized [-Wmaybe-uninitialized] 358 | __c1 = __c2; | ^~~~ /usr/include/boost/variant/variant.hpp: In function ‘ost::mol::alg::FindMemParam ost::mol::alg::FindMembrane(ost::mol::EntityView&, bool, bool)’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/gfx/src/impl/cartoon_renderer.hh:27, from /<>/modules/gfx/src/impl/cartoon_renderer.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 38%] Building CXX object modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/entity_to_density.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_MOL_ALG -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/entity_to_density.cc.o -MF CMakeFiles/ost_mol_alg.dir/entity_to_density.cc.o.d -o CMakeFiles/ost_mol_alg.dir/entity_to_density.cc.o -c /<>/modules/mol/alg/src/entity_to_density.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/polar.hh:24, from /<>/modules/img/alg/pymod/export_polar.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/img/alg/pymod/export_polar.cc:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 38%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/custom_renderer.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/custom_renderer.cc.o -MF CMakeFiles/ost_gfx.dir/impl/custom_renderer.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/custom_renderer.cc.o -c /<>/modules/gfx/src/impl/custom_renderer.cc [ 38%] Linking CXX shared module ../../../../stage/lib/python3.12/dist-packages/ost/img/alg/_ost_img_alg.so cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_img_alg.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro -shared -o ../../../../stage/lib/python3.12/dist-packages/ost/img/alg/_ost_img_alg.so CMakeFiles/_ost_img_alg.dir/wrap_alg.cc.o CMakeFiles/_ost_img_alg.dir/export_filter.cc.o CMakeFiles/_ost_img_alg.dir/export_normalizer.cc.o CMakeFiles/_ost_img_alg.dir/export_transcendentals.cc.o CMakeFiles/_ost_img_alg.dir/export_polar.cc.o -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: ../../../../stage/lib/libost_img_alg.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so ../../../../stage/lib/libost_img.so.2.5.0 ../../../../stage/lib/libost_info.so.2.5.0 ../../../../stage/lib/libost_base.so.2.5.0 ../../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/img/alg/pymod/__init__.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/img/alg/./__init__.pyc\",\"__init__.py\",doraise=True)" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 38%] Built target _ost_img_alg make -f modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/build.make modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/seq/base/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/seq/base/pymod /<>/obj-arm-linux-gnueabihf/modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/build.make modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 38%] Building CXX object modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/export_sequence.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_seq_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/export_sequence.cc.o -MF CMakeFiles/_ost_seq.dir/export_sequence.cc.o.d -o CMakeFiles/_ost_seq.dir/export_sequence.cc.o -c /<>/modules/seq/base/pymod/export_sequence.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_detail.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/connect_renderer_base.hh:23, from /<>/modules/gfx/src/impl/custom_renderer.hh:22, from /<>/modules/gfx/src/impl/custom_renderer.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/connect_renderer_base.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/dft.hh:24, from /<>/modules/mol/alg/src/entity_to_density.cc:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/istream:40, from /usr/include/c++/13/sstream:40, from /<>/modules/mol/alg/src/entity_to_density.cc:1: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 38%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/cpk_renderer.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/cpk_renderer.cc.o -MF CMakeFiles/ost_gfx.dir/impl/cpk_renderer.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/cpk_renderer.cc.o -c /<>/modules/gfx/src/impl/cpk_renderer.cc [ 38%] Linking CXX shared library ../../../../stage/lib/libost_mol_alg.so cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/atom_scattering_properties.txt /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/atom_scattering_properties.txt cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/stereo_chemical_props.txt /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/stereo_chemical_props.txt cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_mol_alg.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro -shared -Wl,-soname,libost_mol_alg.so.2.5 -o ../../../../stage/lib/libost_mol_alg.so.2.5.0 CMakeFiles/ost_mol_alg.dir/svd_superpose.cc.o CMakeFiles/ost_mol_alg.dir/clash_score.cc.o CMakeFiles/ost_mol_alg.dir/sec_structure_segments.cc.o CMakeFiles/ost_mol_alg.dir/local_dist_diff_test.cc.o CMakeFiles/ost_mol_alg.dir/distance_test_common.cc.o CMakeFiles/ost_mol_alg.dir/distance_rmsd_test.cc.o CMakeFiles/ost_mol_alg.dir/superpose_frames.cc.o CMakeFiles/ost_mol_alg.dir/filter_clashes.cc.o CMakeFiles/ost_mol_alg.dir/construct_cbeta.cc.o CMakeFiles/ost_mol_alg.dir/trajectory_analysis.cc.o CMakeFiles/ost_mol_alg.dir/structure_analysis.cc.o CMakeFiles/ost_mol_alg.dir/consistency_checks.cc.o CMakeFiles/ost_mol_alg.dir/pdbize.cc.o CMakeFiles/ost_mol_alg.dir/adjacency_bitmap.cc.o CMakeFiles/ost_mol_alg.dir/contact_overlap.cc.o CMakeFiles/ost_mol_alg.dir/domain_find.cc.o CMakeFiles/ost_mol_alg.dir/similarity_matrix.cc.o CMakeFiles/ost_mol_alg.dir/accessibility.cc.o CMakeFiles/ost_mol_alg.dir/sec_struct.cc.o CMakeFiles/ost_mol_alg.dir/nonstandard.cc.o CMakeFiles/ost_mol_alg.dir/molck.cc.o CMakeFiles/ost_mol_alg.dir/find_membrane.cc.o CMakeFiles/ost_mol_alg.dir/entity_to_density.cc.o -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: /usr/lib/arm-linux-gnueabihf/libboost_program_options.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_thread.so.1.83.0 ../../../../stage/lib/libost_img_alg.so.2.5.0 ../../../../stage/lib/libost_seq_alg.so.2.5.0 ../../../../stage/lib/libost_conop.so.2.5.0 ../../../../stage/lib/libost_img.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so ../../../../stage/lib/libost_db.so.2.5.0 ../../../../stage/lib/libost_seq.so.2.5.0 ../../../../stage/lib/libost_mol.so.2.5.0 ../../../../stage/lib/libost_info.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so.1.83.0 ../../../../stage/lib/libost_base.so.2.5.0 ../../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libsqlite3.so cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E cmake_symlink_library ../../../../stage/lib/libost_mol_alg.so.2.5.0 ../../../../stage/lib/libost_mol_alg.so.2.5 ../../../../stage/lib/libost_mol_alg.so make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 38%] Built target ost_mol_alg make -f modules/io/src/CMakeFiles/ost_io.dir/build.make modules/io/src/CMakeFiles/ost_io.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/io/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/io/src /<>/obj-arm-linux-gnueabihf/modules/io/src/CMakeFiles/ost_io.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/io/src/CMakeFiles/ost_io.dir/build.make modules/io/src/CMakeFiles/ost_io.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 38%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/io_manager.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/io_manager.cc.o -MF CMakeFiles/ost_io.dir/io_manager.cc.o.d -o CMakeFiles/ost_io.dir/io_manager.cc.o -c /<>/modules/io/src/io_manager.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_renderer.hh:32, from /<>/modules/gfx/src/impl/cpk_renderer.hh:24, from /<>/modules/gfx/src/impl/cpk_renderer.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec3.hh:22, from /<>/modules/gfx/src/impl/cpk_renderer.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_renderer.hh:38: /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:62:16: warning: ‘virtual void ost::gfx::GfxObj::Apply(ost::gfx::GfxNodeVisitor&, ost::gfx::GfxNodeVisitor::Stack)’ was hidden [-Woverloaded-virtual=] 62 | virtual void Apply(GfxNodeVisitor& v, GfxNodeVisitor::Stack st); | ^~~~~ In file included from /<>/modules/gfx/src/impl/cpk_renderer.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:294:8: note: by ‘ost::gfx::Entity::Apply’ 294 | void Apply(const gfx::MapHandleColorOp& op, bool store=true); | ^~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info_group.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:32, from /<>/modules/seq/base/pymod/export_sequence.cc:30: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/seq/base/pymod/export_sequence.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /<>/modules/seq/base/pymod/export_sequence.cc:34: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_region.hh:27, from /<>/modules/seq/base/pymod/export_sequence.cc:37: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:29:43: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 29 | class AlignedColumnIterator : public std::iterator>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/io_manager.hh:28, from /<>/modules/io/src/io_manager.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/io_manager.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 38%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/debug_renderer.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/debug_renderer.cc.o -MF CMakeFiles/ost_gfx.dir/impl/debug_renderer.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/debug_renderer.cc.o -c /<>/modules/gfx/src/impl/debug_renderer.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_renderer.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/trace_renderer_base.hh:27, from /<>/modules/gfx/src/impl/debug_renderer.hh:22, from /<>/modules/gfx/src/impl/debug_renderer.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/trace_renderer_base.hh:26: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_renderer.hh:38: /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_node.hh:55:16: warning: ‘virtual void ost::gfx::GfxNode::DeepSwap(ost::gfx::GfxNode&)’ was hidden [-Woverloaded-virtual=] 55 | virtual void DeepSwap(GfxNode& n); | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:58:16: note: by ‘virtual void ost::gfx::GfxObj::DeepSwap(ost::gfx::GfxObj&)’ 58 | virtual void DeepSwap(GfxObj& go); | ^~~~~~~~ [ 38%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/simple_renderer.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/simple_renderer.cc.o -MF CMakeFiles/ost_gfx.dir/impl/simple_renderer.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/simple_renderer.cc.o -c /<>/modules/gfx/src/impl/simple_renderer.cc [ 39%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/convert.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/convert.cc.o -MF CMakeFiles/ost_io.dir/convert.cc.o.d -o CMakeFiles/ost_io.dir/convert.cc.o -c /<>/modules/io/src/convert.cc [ 39%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/io_utils.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/io_utils.cc.o -MF CMakeFiles/ost_io.dir/io_utils.cc.o.d -o CMakeFiles/ost_io.dir/io_utils.cc.o -c /<>/modules/io/src/io_utils.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:37, from /<>/modules/gfx/src/impl/simple_renderer.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec3.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gl_helper.hh:36, from /<>/modules/gfx/src/impl/simple_renderer.cc:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_renderer.hh:38, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:41, from /<>/modules/gfx/src/impl/simple_renderer.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:62:16: warning: ‘virtual void ost::gfx::GfxObj::Apply(ost::gfx::GfxNodeVisitor&, ost::gfx::GfxNodeVisitor::Stack)’ was hidden [-Woverloaded-virtual=] 62 | virtual void Apply(GfxNodeVisitor& v, GfxNodeVisitor::Stack st); | ^~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:294:8: note: by ‘ost::gfx::Entity::Apply’ 294 | void Apply(const gfx::MapHandleColorOp& op, bool store=true); | ^~~~~ [ 39%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_crd_handler.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_crd_handler.cc.o -MF CMakeFiles/ost_io.dir/mol/entity_io_crd_handler.cc.o.d -o CMakeFiles/ost_io.dir/mol/entity_io_crd_handler.cc.o -c /<>/modules/io/src/mol/entity_io_crd_handler.cc [ 39%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/sline_renderer.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/sline_renderer.cc.o -MF CMakeFiles/ost_gfx.dir/impl/sline_renderer.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/sline_renderer.cc.o -c /<>/modules/gfx/src/impl/sline_renderer.cc [ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/line_trace_renderer.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/line_trace_renderer.cc.o -MF CMakeFiles/ost_gfx.dir/impl/line_trace_renderer.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/line_trace_renderer.cc.o -c /<>/modules/gfx/src/impl/line_trace_renderer.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/conop.hh:24, from /<>/modules/io/src/mol/entity_io_crd_handler.cc:33: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/io/src/mol/entity_io_crd_handler.cc:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/modules/io/src/mol/entity_io_crd_handler.cc: In constructor ‘ost::io::CRDReader::CRDReader(const boost::filesystem::path&)’: /<>/modules/io/src/mol/entity_io_crd_handler.cc:63:57: warning: ‘std::string boost::filesystem::extension(const path&)’ is deprecated: Use path::extension() instead [-Wdeprecated-declarations] 63 | if (boost::iequals(".gz", boost::filesystem::extension(loc))) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ In file included from /<>/modules/io/src/mol/entity_io_crd_handler.cc:27: /usr/include/boost/filesystem/convenience.hpp:29:20: note: declared here 29 | inline std::string extension(const path& p) | ^~~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/backbone_trace.hh:26, from /<>/modules/gfx/src/impl/sline_renderer.hh:29, from /<>/modules/gfx/src/impl/sline_renderer.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:18, from /usr/include/boost/shared_ptr.hpp:17, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity_fw.hh:22, from /<>/modules/gfx/src/impl/sline_renderer.hh:27: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/backbone_trace.hh:26, from /<>/modules/gfx/src/impl/line_trace_renderer.hh:29, from /<>/modules/gfx/src/impl/line_trace_renderer.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/backbone_trace.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/backbone_trace.cc.o -MF CMakeFiles/ost_gfx.dir/impl/backbone_trace.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/backbone_trace.cc.o -c /<>/modules/gfx/src/impl/backbone_trace.cc [ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/connect_renderer_base.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/connect_renderer_base.cc.o -MF CMakeFiles/ost_gfx.dir/impl/connect_renderer_base.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/connect_renderer_base.cc.o -c /<>/modules/gfx/src/impl/connect_renderer_base.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/gfx/src/impl/backbone_trace.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_detail.hh:35, from /<>/modules/gfx/src/impl/backbone_trace.hh:29, from /<>/modules/gfx/src/impl/backbone_trace.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_node.hh:55:16: warning: ‘virtual void ost::gfx::GfxNode::DeepSwap(ost::gfx::GfxNode&)’ was hidden [-Woverloaded-virtual=] 55 | virtual void DeepSwap(GfxNode& n); | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:58:16: note: by ‘virtual void ost::gfx::GfxObj::DeepSwap(ost::gfx::GfxObj&)’ 58 | virtual void DeepSwap(GfxObj& go); | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:37, from /<>/modules/gfx/src/impl/connect_renderer_base.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/stl_tree.h:63, from /usr/include/c++/13/map:62, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:26: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/trace_renderer_base.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/trace_renderer_base.cc.o -MF CMakeFiles/ost_gfx.dir/impl/trace_renderer_base.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/trace_renderer_base.cc.o -c /<>/modules/gfx/src/impl/trace_renderer_base.cc [ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/mapped_property.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/mapped_property.cc.o -MF CMakeFiles/ost_gfx.dir/impl/mapped_property.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/mapped_property.cc.o -c /<>/modules/gfx/src/impl/mapped_property.cc [ 41%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_pqr_handler.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_pqr_handler.cc.o -MF CMakeFiles/ost_io.dir/mol/entity_io_pqr_handler.cc.o.d -o CMakeFiles/ost_io.dir/mol/entity_io_pqr_handler.cc.o -c /<>/modules/io/src/mol/entity_io_pqr_handler.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_property_mapper.hh:29, from /<>/modules/gfx/src/impl/mapped_property.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_property_mapper.hh:28: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:37, from /<>/modules/gfx/src/impl/trace_renderer_base.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/stl_tree.h:63, from /usr/include/c++/13/map:62, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:26: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/tabulated_trig.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/tabulated_trig.cc.o -MF CMakeFiles/ost_gfx.dir/impl/tabulated_trig.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/tabulated_trig.cc.o -c /<>/modules/gfx/src/impl/tabulated_trig.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/conop.hh:24, from /<>/modules/io/src/mol/entity_io_pqr_handler.cc:35: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/io/src/mol/entity_io_pqr_handler.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/modules/io/src/mol/entity_io_pqr_handler.cc: In constructor ‘ost::io::PQRReader::PQRReader(const boost::filesystem::path&)’: /<>/modules/io/src/mol/entity_io_pqr_handler.cc:61:57: warning: ‘std::string boost::filesystem::extension(const path&)’ is deprecated: Use path::extension() instead [-Wdeprecated-declarations] 61 | if (boost::iequals(".gz", boost::filesystem::extension(loc))) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ In file included from /<>/modules/io/src/mol/entity_io_pqr_handler.cc:28: /usr/include/boost/filesystem/convenience.hpp:29:20: note: declared here 29 | inline std::string extension(const path& p) | ^~~~~~~~~ [ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/trace_renderer.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/trace_renderer.cc.o -MF CMakeFiles/ost_gfx.dir/impl/trace_renderer.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/trace_renderer.cc.o -c /<>/modules/gfx/src/impl/trace_renderer.cc [ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/fast_spheres.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/fast_spheres.cc.o -MF CMakeFiles/ost_gfx.dir/impl/fast_spheres.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/fast_spheres.cc.o -c /<>/modules/gfx/src/impl/fast_spheres.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:29, from /<>/modules/gfx/src/impl/trace_renderer.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:37, from /<>/modules/gfx/src/impl/fast_spheres.cc:28: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/stl_tree.h:63, from /usr/include/c++/13/map:62, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:26: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/render_options.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/render_options.cc.o -MF CMakeFiles/ost_gfx.dir/render_options/render_options.cc.o.d -o CMakeFiles/ost_gfx.dir/render_options/render_options.cc.o -c /<>/modules/gfx/src/render_options/render_options.cc [ 41%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/line_render_options.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/line_render_options.cc.o -MF CMakeFiles/ost_gfx.dir/render_options/line_render_options.cc.o.d -o CMakeFiles/ost_gfx.dir/render_options/line_render_options.cc.o -c /<>/modules/gfx/src/render_options/line_render_options.cc [ 42%] Building CXX object modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/export_profile_handle.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_seq_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/export_profile_handle.cc.o -MF CMakeFiles/_ost_seq.dir/export_profile_handle.cc.o.d -o CMakeFiles/_ost_seq.dir/export_profile_handle.cc.o -c /<>/modules/seq/base/pymod/export_profile_handle.cc [ 42%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/custom_render_options.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/custom_render_options.cc.o -MF CMakeFiles/ost_gfx.dir/render_options/custom_render_options.cc.o.d -o CMakeFiles/ost_gfx.dir/render_options/custom_render_options.cc.o -c /<>/modules/gfx/src/render_options/custom_render_options.cc [ 42%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_mae_handler.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_mae_handler.cc.o -MF CMakeFiles/ost_io.dir/mol/entity_io_mae_handler.cc.o.d -o CMakeFiles/ost_io.dir/mol/entity_io_mae_handler.cc.o -c /<>/modules/io/src/mol/entity_io_mae_handler.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:29, from /<>/modules/gfx/src/render_options/render_options.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/input.hh:30, from /<>/modules/gfx/src/render_options/render_options.cc:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 43%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/cpk_render_options.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/cpk_render_options.cc.o -MF CMakeFiles/ost_gfx.dir/render_options/cpk_render_options.cc.o.d -o CMakeFiles/ost_gfx.dir/render_options/cpk_render_options.cc.o -c /<>/modules/gfx/src/render_options/cpk_render_options.cc [ 43%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/simple_render_options.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/simple_render_options.cc.o -MF CMakeFiles/ost_gfx.dir/render_options/simple_render_options.cc.o.d -o CMakeFiles/ost_gfx.dir/render_options/simple_render_options.cc.o -c /<>/modules/gfx/src/render_options/simple_render_options.cc [ 43%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/sline_render_options.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/sline_render_options.cc.o -MF CMakeFiles/ost_gfx.dir/render_options/sline_render_options.cc.o.d -o CMakeFiles/ost_gfx.dir/render_options/sline_render_options.cc.o -c /<>/modules/gfx/src/render_options/sline_render_options.cc In file included from /usr/include/c++/13/bits/stl_tempbuf.h:62, from /usr/include/c++/13/memory:66, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:18, from /usr/include/boost/shared_ptr.hpp:17, from /<>/modules/gfx/src/render_options/simple_render_options.hh:26, from /<>/modules/gfx/src/render_options/simple_render_options.cc:23: /usr/include/c++/13/bits/stl_pair.h: In instantiation of ‘constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = float&; _T2 = float&; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp>::type = float; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp2>::type = float]’: /<>/modules/gfx/src/render_options/simple_render_options.cc:81:31: required from here /usr/include/c++/13/bits/stl_pair.h:922:5: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 922 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ [ 43%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/line_trace_render_options.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/line_trace_render_options.cc.o -MF CMakeFiles/ost_gfx.dir/render_options/line_trace_render_options.cc.o.d -o CMakeFiles/ost_gfx.dir/render_options/line_trace_render_options.cc.o -c /<>/modules/gfx/src/render_options/line_trace_render_options.cc [ 43%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/cartoon_render_options.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/cartoon_render_options.cc.o -MF CMakeFiles/ost_gfx.dir/render_options/cartoon_render_options.cc.o.d -o CMakeFiles/ost_gfx.dir/render_options/cartoon_render_options.cc.o -c /<>/modules/gfx/src/render_options/cartoon_render_options.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/conop.hh:24, from /<>/modules/io/src/mol/entity_io_mae_handler.cc:38: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/io/src/mol/entity_io_mae_handler.cc:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/modules/io/src/mol/entity_io_mae_handler.cc: In constructor ‘ost::io::MAEReader::MAEReader(const boost::filesystem::path&)’: /<>/modules/io/src/mol/entity_io_mae_handler.cc:60:57: warning: ‘std::string boost::filesystem::extension(const path&)’ is deprecated: Use path::extension() instead [-Wdeprecated-declarations] 60 | if (boost::iequals(".gz", boost::filesystem::extension(loc))) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ In file included from /<>/modules/io/src/mol/entity_io_mae_handler.cc:31: /usr/include/boost/filesystem/convenience.hpp:29:20: note: declared here 29 | inline std::string extension(const path& p) | ^~~~~~~~~ [ 43%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/trace_render_options.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/render_options/trace_render_options.cc.o -MF CMakeFiles/ost_gfx.dir/render_options/trace_render_options.cc.o.d -o CMakeFiles/ost_gfx.dir/render_options/trace_render_options.cc.o -c /<>/modules/gfx/src/render_options/trace_render_options.cc [ 43%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/map_handle_color_op.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/color_ops/map_handle_color_op.cc.o -MF CMakeFiles/ost_gfx.dir/color_ops/map_handle_color_op.cc.o.d -o CMakeFiles/ost_gfx.dir/color_ops/map_handle_color_op.cc.o -c /<>/modules/gfx/src/color_ops/map_handle_color_op.cc [ 43%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/map_iso.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/map_iso.cc.o -MF CMakeFiles/ost_gfx.dir/map_iso.cc.o.d -o CMakeFiles/ost_gfx.dir/map_iso.cc.o -c /<>/modules/gfx/src/map_iso.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:29, from /<>/modules/gfx/src/color_ops/map_handle_color_op.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/discrete_shrink.hh:24, from /<>/modules/gfx/src/map_iso.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /<>/modules/gfx/src/map_iso.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 43%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/map_slab.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/map_slab.cc.o -MF CMakeFiles/ost_gfx.dir/map_slab.cc.o.d -o CMakeFiles/ost_gfx.dir/map_slab.cc.o -c /<>/modules/gfx/src/map_slab.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/stat.hh:30, from /<>/modules/gfx/src/map_slab.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/modules/gfx/src/map_slab.cc:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 43%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/map_iso_gen.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/map_iso_gen.cc.o -MF CMakeFiles/ost_gfx.dir/impl/map_iso_gen.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/map_iso_gen.cc.o -c /<>/modules/gfx/src/impl/map_iso_gen.cc /<>/modules/gfx/src/map_slab.cc: In function ‘std::pair ost::gfx::{anonymous}::calc_sr(float, float, float, float, float, float)’: /<>/modules/gfx/src/map_slab.cc:182:53: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 182 | float cx, float cy) | ^ [ 43%] Building CXX object modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/wrap_seq.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_seq_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/wrap_seq.cc.o -MF CMakeFiles/_ost_seq.dir/wrap_seq.cc.o.d -o CMakeFiles/_ost_seq.dir/wrap_seq.cc.o -c /<>/modules/seq/base/pymod/wrap_seq.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/gfx/src/impl/map_iso_gen.cc:28: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/gfx/src/impl/map_iso_gen.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 44%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/map_iso_gen_s.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/map_iso_gen_s.cc.o -MF CMakeFiles/ost_gfx.dir/impl/map_iso_gen_s.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/map_iso_gen_s.cc.o -c /<>/modules/gfx/src/impl/map_iso_gen_s.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/modules/gfx/src/impl/map_iso_gen_s.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /usr/include/boost/smart_ptr/shared_array.hpp:21, from /usr/include/boost/shared_array.hpp:17, from /<>/modules/gfx/src/impl/map_iso_gen_s.cc:21: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 44%] Linking CXX shared module ../../../../stage/lib/python3.12/dist-packages/ost/seq/_ost_seq.so cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_seq.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro -shared -o ../../../../stage/lib/python3.12/dist-packages/ost/seq/_ost_seq.so CMakeFiles/_ost_seq.dir/export_sequence.cc.o CMakeFiles/_ost_seq.dir/export_profile_handle.cc.o CMakeFiles/_ost_seq.dir/wrap_seq.cc.o -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: ../../../../stage/lib/libost_seq.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so.1.83.0 ../../../../stage/lib/libost_mol.so.2.5.0 ../../../../stage/lib/libost_info.so.2.5.0 ../../../../stage/lib/libost_base.so.2.5.0 ../../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/seq/base/pymod/__init__.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/seq/./__init__.pyc\",\"__init__.py\",doraise=True)" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 44%] Built target _ost_seq make -f modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/build.make modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/bindings/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/build.make modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 44%] Building CXX object modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/export_tmalign.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_bindings_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/export_tmalign.cc.o -MF CMakeFiles/_ost_bindings.dir/export_tmalign.cc.o.d -o CMakeFiles/_ost_bindings.dir/export_tmalign.cc.o -c /<>/modules/bindings/pymod/export_tmalign.cc [ 44%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/map_iso_gen_o.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/map_iso_gen_o.cc.o -MF CMakeFiles/ost_gfx.dir/impl/map_iso_gen_o.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/map_iso_gen_o.cc.o -c /<>/modules/gfx/src/impl/map_iso_gen_o.cc [ 44%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/map_octree.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/map_octree.cc.o -MF CMakeFiles/ost_gfx.dir/impl/map_octree.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/map_octree.cc.o -c /<>/modules/gfx/src/impl/map_octree.cc [ 44%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/pdb_reader.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/pdb_reader.cc.o -MF CMakeFiles/ost_io.dir/mol/pdb_reader.cc.o.d -o CMakeFiles/ost_io.dir/mol/pdb_reader.cc.o -c /<>/modules/io/src/mol/pdb_reader.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/vertex_array.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/map_iso_prop.hh:26, from /<>/modules/gfx/src/impl/map_iso_gen_o.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /usr/include/boost/smart_ptr/shared_array.hpp:21, from /usr/include/boost/shared_array.hpp:17, from /<>/modules/gfx/src/impl/map_iso_gen_o.cc:21: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_handle.hh:38, from /<>/modules/gfx/src/impl/map_octree.hh:22, from /<>/modules/gfx/src/impl/map_octree.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:18, from /usr/include/boost/shared_ptr.hpp:17, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_handle.hh:32: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 44%] Building CXX object modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/octree_isocont.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DOST_MODULE_OST_GFX -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/src/CMakeFiles/ost_gfx.dir/impl/octree_isocont.cc.o -MF CMakeFiles/ost_gfx.dir/impl/octree_isocont.cc.o.d -o CMakeFiles/ost_gfx.dir/impl/octree_isocont.cc.o -c /<>/modules/gfx/src/impl/octree_isocont.cc /<>/modules/gfx/src/impl/map_octree.cc: In member function ‘std::pair ost::gfx::impl::MapOctree::BuildOctreeRec(const ost::gfx::impl::OcRangeVector&, uint16_t, ost::img::image_state::RealSpatialImageState*, const ost::img::Extent&, ost::gfx::impl::OctreeNode&)’: /<>/modules/gfx/src/impl/map_octree.cc:84:68: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 84 | OctreeNode& parent) | ^ [ 44%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_pdb_handler.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_pdb_handler.cc.o -MF CMakeFiles/ost_io.dir/mol/entity_io_pdb_handler.cc.o.d -o CMakeFiles/ost_io.dir/mol/entity_io_pdb_handler.cc.o -c /<>/modules/io/src/mol/entity_io_pdb_handler.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/conop.hh:24, from /<>/modules/io/src/mol/pdb_reader.cc:32: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/algorithm:60, from /usr/include/boost/iostreams/filter/gzip.hpp:21, from /<>/modules/io/src/mol/pdb_reader.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/modules/io/src/mol/pdb_reader.hh:28, from /<>/modules/io/src/mol/pdb_reader.cc:35: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/modules/io/src/mol/pdb_reader.cc: In member function ‘void ost::io::PDBReader::Init(const boost::filesystem::path&)’: /<>/modules/io/src/mol/pdb_reader.cc:91:57: warning: ‘std::string boost::filesystem::extension(const path&)’ is deprecated: Use path::extension() instead [-Wdeprecated-declarations] 91 | if (boost::iequals(".gz", boost::filesystem::extension(loc))) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ In file included from /<>/modules/io/src/mol/pdb_reader.cc:20: /usr/include/boost/filesystem/convenience.hpp:29:20: note: declared here 29 | inline std::string extension(const path& p) | ^~~~~~~~~ /<>/modules/io/src/mol/pdb_reader.cc:97:49: warning: ‘std::string boost::filesystem::extension(const path&)’ is deprecated: Use path::extension() instead [-Wdeprecated-declarations] 97 | if(boost::iequals(boost::filesystem::extension(loc), ".pqr")) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ /usr/include/boost/filesystem/convenience.hpp:29:20: note: declared here 29 | inline std::string extension(const path& p) | ^~~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_handle.hh:38, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/octree_isocont.hh:27, from /<>/modules/gfx/src/impl/octree_isocont.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/iterator:61, from /usr/include/boost/container_hash/is_range.hpp:16, from /usr/include/boost/container_hash/hash.hpp:15, from /usr/include/boost/functional/hash.hpp:6, from /usr/include/boost/unordered/unordered_map.hpp:20, from /usr/include/boost/unordered_map.hpp:17, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/octree_isocont.hh:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/bindings/wrap_tmalign.hh:24, from /<>/modules/bindings/pymod/export_tmalign.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/bindings/pymod/export_tmalign.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 44%] Linking CXX shared library ../../../stage/lib/libost_gfx.so cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/test_texture.png /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/textures/test_texture.png cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/glyph_texture.png /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/textures/glyph_texture.png cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_gfx.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro -shared -Wl,-soname,libost_gfx.so.2.5 -o ../../../stage/lib/libost_gfx.so.2.5.0 CMakeFiles/ost_gfx.dir/bitmap_io.cc.o CMakeFiles/ost_gfx.dir/exporter.cc.o CMakeFiles/ost_gfx.dir/collada_exporter.cc.o CMakeFiles/ost_gfx.dir/color.cc.o CMakeFiles/ost_gfx.dir/primitives.cc.o CMakeFiles/ost_gfx.dir/entity.cc.o CMakeFiles/ost_gfx.dir/symmetry_node.cc.o CMakeFiles/ost_gfx.dir/gfx_node.cc.o CMakeFiles/ost_gfx.dir/gfx_object.cc.o CMakeFiles/ost_gfx.dir/gfx_prim.cc.o CMakeFiles/ost_gfx.dir/gfx_test_object.cc.o CMakeFiles/ost_gfx.dir/input.cc.o CMakeFiles/ost_gfx.dir/prim_list.cc.o CMakeFiles/ost_gfx.dir/scene.cc.o CMakeFiles/ost_gfx.dir/selection.cc.o CMakeFiles/ost_gfx.dir/surface.cc.o CMakeFiles/ost_gfx.dir/gradient.cc.o CMakeFiles/ost_gfx.dir/gradient_manager.cc.o CMakeFiles/ost_gfx.dir/vertex_array.cc.o CMakeFiles/ost_gfx.dir/vertex_array_helper.cc.o CMakeFiles/ost_gfx.dir/material.cc.o CMakeFiles/ost_gfx.dir/povray.cc.o CMakeFiles/ost_gfx.dir/gost_exporter.cc.o CMakeFiles/ost_gfx.dir/texture.cc.o CMakeFiles/ost_gfx.dir/color_ops/color_op.cc.o CMakeFiles/ost_gfx.dir/color_ops/by_element_color_op.cc.o CMakeFiles/ost_gfx.dir/color_ops/by_chain_color_op.cc.o CMakeFiles/ost_gfx.dir/color_ops/uniform_color_op.cc.o CMakeFiles/ost_gfx.dir/color_ops/gradient_color_op.cc.o CMakeFiles/ost_gfx.dir/color_ops/entity_view_color_op.cc.o CMakeFiles/ost_gfx.dir/color_ops/basic_gradient_color_op.cc.o CMakeFiles/ost_gfx.dir/color_ops/gradient_level_color_op.cc.o CMakeFiles/ost_gfx.dir/impl/entity_renderer.cc.o CMakeFiles/ost_gfx.dir/impl/entity_detail.cc.o CMakeFiles/ost_gfx.dir/impl/cartoon_renderer.cc.o CMakeFiles/ost_gfx.dir/impl/custom_renderer.cc.o CMakeFiles/ost_gfx.dir/impl/cpk_renderer.cc.o CMakeFiles/ost_gfx.dir/impl/debug_renderer.cc.o CMakeFiles/ost_gfx.dir/impl/simple_renderer.cc.o CMakeFiles/ost_gfx.dir/impl/sline_renderer.cc.o CMakeFiles/ost_gfx.dir/impl/line_trace_renderer.cc.o CMakeFiles/ost_gfx.dir/impl/backbone_trace.cc.o CMakeFiles/ost_gfx.dir/impl/connect_renderer_base.cc.o CMakeFiles/ost_gfx.dir/impl/trace_renderer_base.cc.o CMakeFiles/ost_gfx.dir/impl/mapped_property.cc.o CMakeFiles/ost_gfx.dir/impl/tabulated_trig.cc.o CMakeFiles/ost_gfx.dir/impl/trace_renderer.cc.o CMakeFiles/ost_gfx.dir/impl/fast_spheres.cc.o CMakeFiles/ost_gfx.dir/render_options/render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/line_render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/custom_render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/cpk_render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/simple_render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/sline_render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/line_trace_render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/cartoon_render_options.cc.o CMakeFiles/ost_gfx.dir/render_options/trace_render_options.cc.o CMakeFiles/ost_gfx.dir/color_ops/map_handle_color_op.cc.o CMakeFiles/ost_gfx.dir/map_iso.cc.o CMakeFiles/ost_gfx.dir/map_slab.cc.o CMakeFiles/ost_gfx.dir/impl/map_iso_gen.cc.o CMakeFiles/ost_gfx.dir/impl/map_iso_gen_s.cc.o CMakeFiles/ost_gfx.dir/impl/map_iso_gen_o.cc.o CMakeFiles/ost_gfx.dir/impl/map_octree.cc.o CMakeFiles/ost_gfx.dir/impl/octree_isocont.cc.o -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_conop.so.2.5.0 ../../../stage/lib/libost_img_alg.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libOpenGL.so /usr/lib/arm-linux-gnueabihf/libGLX.so /usr/lib/arm-linux-gnueabihf/libGLU.so /usr/lib/arm-linux-gnueabihf/libpng.so /usr/lib/arm-linux-gnueabihf/libz.so ../../../stage/lib/libost_db.so.2.5.0 ../../../stage/lib/libost_seq.so.2.5.0 ../../../stage/lib/libost_mol.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libsqlite3.so ../../../stage/lib/libost_img.so.2.5.0 ../../../stage/lib/libost_info.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 ../../../stage/lib/libost_base.so.2.5.0 ../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/pdb_reader.hh:28, from /<>/modules/io/src/mol/entity_io_pdb_handler.cc:35: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/io/src/mol/entity_io_pdb_handler.cc:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/modules/io/src/mol/entity_io_pdb_handler.cc: In member function ‘virtual void ost::io::EntityIOPDBHandler::Export(const ost::mol::EntityView&, const boost::filesystem::path&) const’: /<>/modules/io/src/mol/entity_io_pdb_handler.cc:52:50: warning: ‘std::string boost::filesystem::extension(const path&)’ is deprecated: Use path::extension() instead [-Wdeprecated-declarations] 52 | if (boost::iequals(boost::filesystem::extension(loc), ".pqr")) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ In file included from /<>/modules/io/src/mol/entity_io_pdb_handler.cc:27: /usr/include/boost/filesystem/convenience.hpp:29:20: note: declared here 29 | inline std::string extension(const path& p) | ^~~~~~~~~ cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E cmake_symlink_library ../../../stage/lib/libost_gfx.so.2.5.0 ../../../stage/lib/libost_gfx.so.2.5 ../../../stage/lib/libost_gfx.so make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 44%] Built target ost_gfx make -f modules/db/pymod/CMakeFiles/_ost_db.dir/build.make modules/db/pymod/CMakeFiles/_ost_db.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/db/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/db/pymod /<>/obj-arm-linux-gnueabihf/modules/db/pymod/CMakeFiles/_ost_db.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/db/pymod/CMakeFiles/_ost_db.dir/build.make modules/db/pymod/CMakeFiles/_ost_db.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 44%] Building CXX object modules/db/pymod/CMakeFiles/_ost_db.dir/export_linear_db.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/db/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_db_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/db/pymod/CMakeFiles/_ost_db.dir/export_linear_db.cc.o -MF CMakeFiles/_ost_db.dir/export_linear_db.cc.o.d -o CMakeFiles/_ost_db.dir/export_linear_db.cc.o -c /<>/modules/db/pymod/export_linear_db.cc [ 44%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/pdb_writer.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/pdb_writer.cc.o -MF CMakeFiles/ost_io.dir/mol/pdb_writer.cc.o.d -o CMakeFiles/ost_io.dir/mol/pdb_writer.cc.o -c /<>/modules/io/src/mol/pdb_writer.cc [ 44%] Building CXX object modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/wrap_bindings.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_bindings_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/wrap_bindings.cc.o -MF CMakeFiles/_ost_bindings.dir/wrap_bindings.cc.o.d -o CMakeFiles/_ost_bindings.dir/wrap_bindings.cc.o -c /<>/modules/bindings/pymod/wrap_bindings.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /<>/modules/io/src/mol/pdb_writer.cc:35: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/locale:41, from /<>/modules/io/src/mol/pdb_writer.cc:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/modules/io/src/mol/pdb_writer.cc: In constructor ‘ost::io::PDBWriter::PDBWriter(const boost::filesystem::path&, const ost::io::IOProfile&)’: /<>/modules/io/src/mol/pdb_writer.cc:395:58: warning: ‘std::string boost::filesystem::extension(const path&)’ is deprecated: Use path::extension() instead [-Wdeprecated-declarations] 395 | if (boost::iequals(".pqr", boost::filesystem::extension(filename))) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /<>/modules/io/src/mol/pdb_writer.cc:28: /usr/include/boost/filesystem/convenience.hpp:29:20: note: declared here 29 | inline std::string extension(const path& p) | ^~~~~~~~~ /<>/modules/io/src/mol/pdb_writer.cc:398:57: warning: ‘std::string boost::filesystem::extension(const path&)’ is deprecated: Use path::extension() instead [-Wdeprecated-declarations] 398 | if (boost::iequals(".gz", boost::filesystem::extension(filename))) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /usr/include/boost/filesystem/convenience.hpp:29:20: note: declared here 29 | inline std::string extension(const path& p) | ^~~~~~~~~ /<>/modules/io/src/mol/pdb_writer.cc: In constructor ‘ost::io::PDBWriter::PDBWriter(const String&, const ost::io::IOProfile&)’: /<>/modules/io/src/mol/pdb_writer.cc:412:58: warning: ‘std::string boost::filesystem::extension(const path&)’ is deprecated: Use path::extension() instead [-Wdeprecated-declarations] 412 | if (boost::iequals(".pqr", boost::filesystem::extension(filename))) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /usr/include/boost/filesystem/convenience.hpp:29:20: note: declared here 29 | inline std::string extension(const path& p) | ^~~~~~~~~ /<>/modules/io/src/mol/pdb_writer.cc:415:57: warning: ‘std::string boost::filesystem::extension(const path&)’ is deprecated: Use path::extension() instead [-Wdeprecated-declarations] 415 | if (boost::iequals(".gz", boost::filesystem::extension(filename))) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /usr/include/boost/filesystem/convenience.hpp:29:20: note: declared here 29 | inline std::string extension(const path& p) | ^~~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/db/extract_data_helper.hh:24, from /<>/modules/db/pymod/export_linear_db.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/db/pymod/export_linear_db.cc:21: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/db/extract_data_helper.hh:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 44%] Linking CXX shared module ../../../stage/lib/python3.12/dist-packages/ost/bindings/_ost_bindings.so cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_bindings.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro -shared -o ../../../stage/lib/python3.12/dist-packages/ost/bindings/_ost_bindings.so CMakeFiles/_ost_bindings.dir/export_tmalign.cc.o CMakeFiles/_ost_bindings.dir/wrap_bindings.cc.o -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_bindings.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so.1.83.0 ../../../stage/lib/libost_seq.so.2.5.0 ../../../stage/lib/libost_mol.so.2.5.0 ../../../stage/lib/libost_info.so.2.5.0 ../../../stage/lib/libost_base.so.2.5.0 ../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so.1.83.0 cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/bindings/pymod/__init__.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./__init__.pyc\",\"__init__.py\",doraise=True)" [ 44%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_sdf_handler.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_sdf_handler.cc.o -MF CMakeFiles/ost_io.dir/mol/entity_io_sdf_handler.cc.o.d -o CMakeFiles/ost_io.dir/mol/entity_io_sdf_handler.cc.o -c /<>/modules/io/src/mol/entity_io_sdf_handler.cc cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/bindings/pymod/lga.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./lga.pyc\",\"lga.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/bindings/pymod/hbplus.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./hbplus.pyc\",\"hbplus.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/bindings/pymod/msms.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./msms.pyc\",\"msms.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/bindings/pymod/tmtools.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./tmtools.pyc\",\"tmtools.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/bindings/pymod/dssp.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./dssp.pyc\",\"dssp.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/bindings/pymod/clustalw.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./clustalw.pyc\",\"clustalw.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/bindings/pymod/utils.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./utils.pyc\",\"utils.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/bindings/pymod/naccess.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./naccess.pyc\",\"naccess.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/bindings/pymod/hhblits.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./hhblits.pyc\",\"hhblits.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/bindings/pymod/hhblits2.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./hhblits2.pyc\",\"hhblits2.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/bindings/pymod/hhblits3.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./hhblits3.pyc\",\"hhblits3.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/bindings/pymod/blast.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./blast.pyc\",\"blast.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/bindings/pymod/cadscore.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./cadscore.pyc\",\"cadscore.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/bindings/pymod/kclust.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./kclust.pyc\",\"kclust.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/bindings/pymod/ialign.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./ialign.pyc\",\"ialign.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/bindings/pymod/mmseqs2.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./mmseqs2.pyc\",\"mmseqs2.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/bindings/pymod/dockq.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/bindings/./dockq.pyc\",\"dockq.py\",doraise=True)" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 44%] Built target _ost_bindings make -f modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/build.make modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/seq/alg/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/seq/alg/pymod /<>/obj-arm-linux-gnueabihf/modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/build.make modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 44%] Building CXX object modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/wrap_seq_alg.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_seq_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/wrap_seq_alg.cc.o -MF CMakeFiles/_ost_seq_alg.dir/wrap_seq_alg.cc.o.d -o CMakeFiles/_ost_seq_alg.dir/wrap_seq_alg.cc.o -c /<>/modules/seq/alg/pymod/wrap_seq_alg.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/conop.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/sdf_writer.hh:35, from /<>/modules/io/src/mol/entity_io_sdf_handler.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /<>/modules/io/src/mol/entity_io_sdf_handler.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/c++/13/vector:65, from /usr/include/c++/13/functional:64, from /usr/include/boost/config/no_tr1/functional.hpp:21, from /usr/include/boost/function/detail/prologue.hpp:15, from /usr/include/boost/function/function_template.hpp:13, from /usr/include/boost/function/detail/maybe_include.hpp:15, from /usr/include/boost/function/function0.hpp:11, from /usr/include/boost/python/errors.hpp:13, from /usr/include/boost/python/handle.hpp:11, from /usr/include/boost/python/args_fwd.hpp:10, from /usr/include/boost/python/args.hpp:10: /usr/include/c++/13/bits/stl_uninitialized.h: In function ‘_ForwardIterator std::__do_uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = ost::db::AssemblyInfo*]’: /usr/include/c++/13/bits/stl_uninitialized.h:113:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 113 | __do_uninit_copy(_InputIterator __first, _InputIterator __last, | ^~~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_uninitialized.h:113:5: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 In static member function ‘static _ForwardIterator std::__uninitialized_copy<_TrivialValueTypes>::__uninit_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = ost::db::AssemblyInfo*; bool _TrivialValueTypes = false]’, inlined from ‘_ForwardIterator std::uninitialized_copy(_InputIterator, _InputIterator, _ForwardIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = ost::db::AssemblyInfo*]’ at /usr/include/c++/13/bits/stl_uninitialized.h:185:15, inlined from ‘_ForwardIterator std::__uninitialized_copy_a(_InputIterator, _InputIterator, _ForwardIterator, allocator<_Tp>&) [with _InputIterator = __gnu_cxx::__normal_iterator >; _ForwardIterator = ost::db::AssemblyInfo*; _Tp = ost::db::AssemblyInfo]’ at /usr/include/c++/13/bits/stl_uninitialized.h:373:37, inlined from ‘std::vector<_Tp, _Alloc>::vector(const std::vector<_Tp, _Alloc>&) [with _Tp = ost::db::AssemblyInfo; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/stl_vector.h:606:31, inlined from ‘ost::db::LinearIndexer::LinearIndexer(const ost::db::LinearIndexer&)’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/db/linear_indexer.hh:58:7, inlined from ‘boost::python::objects::pointer_holder::pointer_holder(PyObject*, A0) [with A0 = boost::reference_wrapper; Pointer = boost::shared_ptr; Value = ost::db::LinearIndexer]’ at /usr/include/boost/python/object/pointer_holder.hpp:195:15, inlined from ‘static Holder* boost::python::objects::make_instance::construct(void*, PyObject*, boost::reference_wrapper) [with T = ost::db::LinearIndexer; Holder = boost::python::objects::pointer_holder, ost::db::LinearIndexer>]’ at /usr/include/boost/python/object/make_instance.hpp:78:16, inlined from ‘static PyObject* boost::python::objects::make_instance_impl::execute(Arg&) [with Arg = const boost::reference_wrapper; T = ost::db::LinearIndexer; Holder = boost::python::objects::pointer_holder, ost::db::LinearIndexer>; Derived = boost::python::objects::make_instance, ost::db::LinearIndexer> >]’ at /usr/include/boost/python/object/make_instance.hpp:46:47, inlined from ‘static PyObject* boost::python::objects::class_cref_wrapper::convert(const Src&) [with Src = ost::db::LinearIndexer; MakeInstance = boost::python::objects::make_instance, ost::db::LinearIndexer> >]’ at /usr/include/boost/python/object/class_wrapper.hpp:29:37, inlined from ‘static PyObject* boost::python::converter::as_to_python_function::convert(const void*) [with T = ost::db::LinearIndexer; ToPython = boost::python::objects::class_cref_wrapper, ost::db::LinearIndexer> > >]’ at /usr/include/boost/python/converter/as_to_python_function.hpp:40:33: /usr/include/c++/13/bits/stl_uninitialized.h:137:39: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 137 | { return std::__do_uninit_copy(__first, __last, __result); } | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 44%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_mmcif_handler.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/entity_io_mmcif_handler.cc.o -MF CMakeFiles/ost_io.dir/mol/entity_io_mmcif_handler.cc.o.d -o CMakeFiles/ost_io.dir/mol/entity_io_mmcif_handler.cc.o -c /<>/modules/io/src/mol/entity_io_mmcif_handler.cc [ 44%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/sdf_reader.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/sdf_reader.cc.o -MF CMakeFiles/ost_io.dir/mol/sdf_reader.cc.o.d -o CMakeFiles/ost_io.dir/mol/sdf_reader.cc.o -c /<>/modules/io/src/mol/sdf_reader.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/merge_pairwise_alignments.hh:22, from /<>/modules/seq/alg/pymod/wrap_seq_alg.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/seq/alg/pymod/wrap_seq_alg.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_region.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/ins_del.hh:25, from /<>/modules/seq/alg/pymod/wrap_seq_alg.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:29:43: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 29 | class AlignedColumnIterator : public std::iterator>/obj-arm-linux-gnueabihf/modules/db/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_db_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/db/pymod/CMakeFiles/_ost_db.dir/wrap_db.cc.o -MF CMakeFiles/_ost_db.dir/wrap_db.cc.o.d -o CMakeFiles/_ost_db.dir/wrap_db.cc.o -c /<>/modules/db/pymod/wrap_db.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/mmcif_reader.hh:24, from /<>/modules/io/src/mol/entity_io_mmcif_handler.cc:35: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/io/src/mol/entity_io_mmcif_handler.cc:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/mmcif_reader.hh:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/conop.hh:24, from /<>/modules/io/src/mol/sdf_reader.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/algorithm/string/std/string_traits.hpp:15, from /usr/include/boost/algorithm/string/std_containers_traits.hpp:19, from /usr/include/boost/algorithm/string.hpp:18, from /<>/modules/io/src/mol/sdf_reader.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/modules/io/src/mol/sdf_reader.cc: In member function ‘void ost::io::SDFReader::ClearState(const boost::filesystem::path&)’: /<>/modules/io/src/mol/sdf_reader.cc:108:57: warning: ‘std::string boost::filesystem::extension(const path&)’ is deprecated: Use path::extension() instead [-Wdeprecated-declarations] 108 | if (boost::iequals(".gz", boost::filesystem::extension(loc))) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ In file included from /<>/modules/io/src/mol/sdf_reader.cc:24: /usr/include/boost/filesystem/convenience.hpp:29:20: note: declared here 29 | inline std::string extension(const path& p) | ^~~~~~~~~ [ 46%] Linking CXX shared module ../../../stage/lib/python3.12/dist-packages/ost/db/_ost_db.so cd /<>/obj-arm-linux-gnueabihf/modules/db/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_db.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro -shared -o ../../../stage/lib/python3.12/dist-packages/ost/db/_ost_db.so CMakeFiles/_ost_db.dir/export_linear_db.cc.o CMakeFiles/_ost_db.dir/wrap_db.cc.o -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_db.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libsqlite3.so ../../../stage/lib/libost_seq.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so.1.83.0 ../../../stage/lib/libost_mol.so.2.5.0 ../../../stage/lib/libost_info.so.2.5.0 ../../../stage/lib/libost_base.so.2.5.0 ../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 cd /<>/obj-arm-linux-gnueabihf/modules/db/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/db/pymod/__init__.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/db/./__init__.pyc\",\"__init__.py\",doraise=True)" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 46%] Built target _ost_db make -f modules/conop/pymod/CMakeFiles/_ost_conop.dir/build.make modules/conop/pymod/CMakeFiles/_ost_conop.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/conop/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/conop/pymod /<>/obj-arm-linux-gnueabihf/modules/conop/pymod/CMakeFiles/_ost_conop.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/conop/pymod/CMakeFiles/_ost_conop.dir/build.make modules/conop/pymod/CMakeFiles/_ost_conop.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 46%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/wrap_conop.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/conop/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/pymod/CMakeFiles/_ost_conop.dir/wrap_conop.cc.o -MF CMakeFiles/_ost_conop.dir/wrap_conop.cc.o.d -o CMakeFiles/_ost_conop.dir/wrap_conop.cc.o -c /<>/modules/conop/pymod/wrap_conop.cc [ 47%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/sdf_writer.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/sdf_writer.cc.o -MF CMakeFiles/ost_io.dir/mol/sdf_writer.cc.o.d -o CMakeFiles/ost_io.dir/mol/sdf_writer.cc.o -c /<>/modules/io/src/mol/sdf_writer.cc [ 47%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_compound.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/conop/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_compound.cc.o -MF CMakeFiles/_ost_conop.dir/export_compound.cc.o.d -o CMakeFiles/_ost_conop.dir/export_compound.cc.o -c /<>/modules/conop/pymod/export_compound.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/conop.hh:24, from /<>/modules/io/src/mol/sdf_writer.hh:35, from /<>/modules/io/src/mol/sdf_writer.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/io/src/mol/sdf_writer.hh:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 47%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/save_entity.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/save_entity.cc.o -MF CMakeFiles/ost_io.dir/mol/save_entity.cc.o.d -o CMakeFiles/ost_io.dir/mol/save_entity.cc.o -c /<>/modules/io/src/mol/save_entity.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/io_manager.hh:28, from /<>/modules/io/src/mol/save_entity.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /<>/modules/io/src/mol/save_entity.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 47%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/load_entity.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/load_entity.cc.o -MF CMakeFiles/ost_io.dir/mol/load_entity.cc.o.d -o CMakeFiles/ost_io.dir/mol/load_entity.cc.o -c /<>/modules/io/src/mol/load_entity.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/compound_lib_base.hh:5, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/compound_lib.hh:27, from /<>/modules/conop/pymod/export_compound.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/conop/pymod/export_compound.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/conop.hh:24, from /<>/modules/io/src/mol/load_entity.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /<>/modules/io/src/mol/load_entity.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/io_manager.hh:28, from /<>/modules/io/src/mol/load_entity.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 47%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/surface_io_msms_handler.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/surface_io_msms_handler.cc.o -MF CMakeFiles/ost_io.dir/mol/surface_io_msms_handler.cc.o.d -o CMakeFiles/ost_io.dir/mol/surface_io_msms_handler.cc.o -c /<>/modules/io/src/mol/surface_io_msms_handler.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface_prop.hh:25, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface_handle.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface.hh:22, from /<>/modules/io/src/mol/surface_io_handler.hh:25, from /<>/modules/io/src/mol/surface_io_msms_handler.hh:22, from /<>/modules/io/src/mol/surface_io_msms_handler.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/stl_tree.h:63, from /usr/include/c++/13/map:62, from /<>/modules/io/src/mol/surface_io_msms_handler.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/modules/io/src/mol/surface_io_msms_handler.cc: In function ‘std::pair ost::io::{anonymous}::detect_files(const boost::filesystem::path&)’: /<>/modules/io/src/mol/surface_io_msms_handler.cc:36:45: warning: ‘boost::filesystem::path boost::filesystem::change_extension(const path&, const path&)’ is deprecated: Use path::replace_extension() instead [-Wdeprecated-declarations] 36 | return std::make_pair(bf::change_extension(loc, ".vert"), | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ In file included from /<>/modules/io/src/mol/surface_io_msms_handler.cc:25: /usr/include/boost/filesystem/convenience.hpp:41:13: note: declared here 41 | inline path change_extension(const path& p, const path& new_extension) | ^~~~~~~~~~~~~~~~ /<>/modules/io/src/mol/surface_io_msms_handler.cc:37:45: warning: ‘boost::filesystem::path boost::filesystem::change_extension(const path&, const path&)’ is deprecated: Use path::replace_extension() instead [-Wdeprecated-declarations] 37 | bf::change_extension(loc, ".face")); | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~ /usr/include/boost/filesystem/convenience.hpp:41:13: note: declared here 41 | inline path change_extension(const path& p, const path& new_extension) | ^~~~~~~~~~~~~~~~ [ 47%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/load_surface.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/load_surface.cc.o -MF CMakeFiles/ost_io.dir/mol/load_surface.cc.o.d -o CMakeFiles/ost_io.dir/mol/load_surface.cc.o -c /<>/modules/io/src/mol/load_surface.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface_prop.hh:25, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface_handle.hh:24, from /<>/modules/io/src/mol/load_surface.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /<>/modules/io/src/mol/load_surface.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/io_manager.hh:28, from /<>/modules/io/src/mol/load_surface.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 47%] Linking CXX shared module ../../../../stage/lib/python3.12/dist-packages/ost/seq/alg/_ost_seq_alg.so cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_seq_alg.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro -shared -o ../../../../stage/lib/python3.12/dist-packages/ost/seq/alg/_ost_seq_alg.so CMakeFiles/_ost_seq_alg.dir/wrap_seq_alg.cc.o -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: ../../../../stage/lib/libost_seq_alg.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so.1.83.0 ../../../../stage/lib/libost_seq.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so.1.83.0 ../../../../stage/lib/libost_mol.so.2.5.0 ../../../../stage/lib/libost_info.so.2.5.0 ../../../../stage/lib/libost_base.so.2.5.0 ../../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 [ 47%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/chemdict_parser.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/chemdict_parser.cc.o -MF CMakeFiles/ost_io.dir/mol/chemdict_parser.cc.o.d -o CMakeFiles/ost_io.dir/mol/chemdict_parser.cc.o -c /<>/modules/io/src/mol/chemdict_parser.cc cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/seq/alg/pymod/__init__.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/seq/alg/./__init__.pyc\",\"__init__.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/seq/alg/pymod/mat.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/seq/alg/./mat.pyc\",\"mat.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/seq/alg/pymod/renumber.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/seq/alg/./renumber.pyc\",\"renumber.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/seq/alg/pymod/aaindex.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/seq/alg/./aaindex.pyc\",\"aaindex.py\",doraise=True)" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 47%] Built target _ost_seq_alg [ 47%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/io_profile.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/io_profile.cc.o -MF CMakeFiles/ost_io.dir/mol/io_profile.cc.o.d -o CMakeFiles/ost_io.dir/mol/io_profile.cc.o -c /<>/modules/io/src/mol/io_profile.cc [ 47%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/dcd_io.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/dcd_io.cc.o -MF CMakeFiles/ost_io.dir/mol/dcd_io.cc.o.d -o CMakeFiles/ost_io.dir/mol/dcd_io.cc.o -c /<>/modules/io/src/mol/dcd_io.cc [ 48%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_processor.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/conop/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_processor.cc.o -MF CMakeFiles/_ost_conop.dir/export_processor.cc.o.d -o CMakeFiles/_ost_conop.dir/export_processor.cc.o -c /<>/modules/conop/pymod/export_processor.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/compound_lib_base.hh:5, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/compound_lib.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/chemdict_parser.hh:30, from /<>/modules/io/src/mol/chemdict_parser.cc:1: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/chem_class.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/chemdict_parser.hh:27: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/modules/io/src/mol/io_profile.hh:24, from /<>/modules/io/src/mol/io_profile.cc:1: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/io/src/mol/io_profile.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/conop.hh:24, from /<>/modules/io/src/mol/dcd_io.cc:33: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/istream:40, from /usr/include/c++/13/fstream:40, from /<>/modules/io/src/mol/dcd_io.cc:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/modules/io/src/mol/pdb_reader.hh:28, from /<>/modules/io/src/mol/dcd_io.cc:40: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 48%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/star_parser.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/star_parser.cc.o -MF CMakeFiles/ost_io.dir/mol/star_parser.cc.o.d -o CMakeFiles/ost_io.dir/mol/star_parser.cc.o -c /<>/modules/io/src/mol/star_parser.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/processor.hh:22, from /<>/modules/conop/pymod/export_processor.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/conop/pymod/export_processor.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 48%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/mmcif_reader.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/mmcif_reader.cc.o -MF CMakeFiles/ost_io.dir/mol/mmcif_reader.cc.o.d -o CMakeFiles/ost_io.dir/mol/mmcif_reader.cc.o -c /<>/modules/io/src/mol/mmcif_reader.cc [ 50%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/mmcif_info.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/mmcif_info.cc.o -MF CMakeFiles/ost_io.dir/mol/mmcif_info.cc.o.d -o CMakeFiles/ost_io.dir/mol/mmcif_info.cc.o -c /<>/modules/io/src/mol/mmcif_info.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/mmcif_info.hh:25, from /<>/modules/io/src/mol/mmcif_info.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/io_exception.hh:22, from /<>/modules/io/src/mol/mmcif_info.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/xcs_editor.hh:26, from /<>/modules/io/src/mol/mmcif_reader.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/profile.hh:22, from /<>/modules/io/src/mol/mmcif_reader.cc:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/mmcif_reader.hh:25, from /<>/modules/io/src/mol/mmcif_reader.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 50%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/pdb_str.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/pdb_str.cc.o -MF CMakeFiles/ost_io.dir/mol/pdb_str.cc.o.d -o CMakeFiles/ost_io.dir/mol/pdb_str.cc.o -c /<>/modules/io/src/mol/pdb_str.cc [ 50%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_heuristic.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/conop/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_heuristic.cc.o -MF CMakeFiles/_ost_conop.dir/export_heuristic.cc.o.d -o CMakeFiles/_ost_conop.dir/export_heuristic.cc.o -c /<>/modules/conop/pymod/export_heuristic.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/pdb_str.hh:23, from /<>/modules/io/src/mol/pdb_str.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/istream:40, from /usr/include/c++/13/sstream:40, from /<>/modules/io/src/mol/pdb_str.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/pdb_reader.hh:28, from /<>/modules/io/src/mol/pdb_str.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 50%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/sdf_str.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/sdf_str.cc.o -MF CMakeFiles/ost_io.dir/mol/sdf_str.cc.o.d -o CMakeFiles/ost_io.dir/mol/sdf_str.cc.o -c /<>/modules/io/src/mol/sdf_str.cc [ 50%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/mmcif_str.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/mmcif_str.cc.o -MF CMakeFiles/ost_io.dir/mol/mmcif_str.cc.o.d -o CMakeFiles/ost_io.dir/mol/mmcif_str.cc.o -c /<>/modules/io/src/mol/mmcif_str.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/heuristic.hh:22, from /<>/modules/conop/pymod/export_heuristic.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/conop/pymod/export_heuristic.cc:21: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/sdf_str.hh:23, from /<>/modules/io/src/mol/sdf_str.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/istream:40, from /usr/include/c++/13/sstream:40, from /<>/modules/io/src/mol/sdf_str.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/mmcif_str.hh:24, from /<>/modules/io/src/mol/mmcif_str.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/istream:40, from /usr/include/c++/13/sstream:40, from /<>/modules/io/src/mol/mmcif_str.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mmcif_reader.hh:25, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/mmcif_str.hh:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 50%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_amino_acids.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/conop/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_amino_acids.cc.o -MF CMakeFiles/_ost_conop.dir/export_amino_acids.cc.o.d -o CMakeFiles/_ost_conop.dir/export_amino_acids.cc.o -c /<>/modules/conop/pymod/export_amino_acids.cc [ 50%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/stereochemical_params_reader.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/stereochemical_params_reader.cc.o -MF CMakeFiles/ost_io.dir/mol/stereochemical_params_reader.cc.o.d -o CMakeFiles/ost_io.dir/mol/stereochemical_params_reader.cc.o -c /<>/modules/io/src/mol/stereochemical_params_reader.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/local_dist_diff_test.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/stereochemical_params_reader.hh:23, from /<>/modules/io/src/mol/stereochemical_params_reader.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/locale:41, from /usr/include/boost/filesystem/detail/path_traits.hpp:18, from /usr/include/boost/filesystem/path.hpp:21, from /usr/include/boost/filesystem/fstream.hpp:17, from /<>/modules/io/src/mol/stereochemical_params_reader.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/local_dist_diff_test.hh:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/local_dist_diff_test.hh:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/filter_clashes.hh: In member function ‘std::pair ost::mol::alg::StereoChemicalBondViolation::GetAllowedRange() const’: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/filter_clashes.hh:91:48: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 91 | std::pair GetAllowedRange() const { return allowed_range_; } | ^ [ 50%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/mol/omf.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/mol/omf.cc.o -MF CMakeFiles/ost_io.dir/mol/omf.cc.o.d -o CMakeFiles/ost_io.dir/mol/omf.cc.o -c /<>/modules/io/src/mol/omf.cc [ 50%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/seq/clustal_io_handler.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/seq/clustal_io_handler.cc.o -MF CMakeFiles/ost_io.dir/seq/clustal_io_handler.cc.o.d -o CMakeFiles/ost_io.dir/seq/clustal_io_handler.cc.o -c /<>/modules/io/src/seq/clustal_io_handler.cc [ 50%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/seq/load.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/seq/load.cc.o -MF CMakeFiles/ost_io.dir/seq/load.cc.o.d -o CMakeFiles/ost_io.dir/seq/load.cc.o -c /<>/modules/io/src/seq/load.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/amino_acids.hh:26, from /<>/modules/conop/pymod/export_amino_acids.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/conop/pymod/export_amino_acids.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/amino_acids.hh:61:42: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 61 | class AminoAcidSetIterator : public std::iterator>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/modules/io/src/seq/load.hh:27, from /<>/modules/io/src/seq/load.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/module_config.hh:22, from /<>/modules/io/src/seq/load.hh:26: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /<>/modules/io/src/mol/omf.cc:2: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/atom_handle.hh:22, from /<>/modules/io/src/mol/omf.cc:1: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mmcif_info.hh:25, from /<>/modules/io/src/mol/omf.hh:29, from /<>/modules/io/src/mol/omf.cc:6: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/modules/io/src/mol/omf.cc: In function ‘void {anonymous}::DumpName(std::ostream&, const String&)’: /<>/modules/io/src/mol/omf.cc:816:43: warning: the address of ‘static constexpr unsigned char std::numeric_limits::max()’ will never be NULL [-Waddress] 816 | ss << std::numeric_limits::max << ". "; | ^~~ In file included from /usr/include/c++/13/bits/specfun.h:44: /usr/include/c++/13/limits:598:7: note: ‘static constexpr unsigned char std::numeric_limits::max()’ declared here 598 | max() _GLIBCXX_USE_NOEXCEPT { return __SCHAR_MAX__ * 2U + 1; } | ^~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/modules/io/src/seq/clustal_io_handler.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/stl_tree.h:63, from /usr/include/c++/13/map:62, from /<>/modules/io/src/seq/clustal_io_handler.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/modules/io/src/seq/sequence_io_handler.hh:27, from /<>/modules/io/src/seq/clustal_io_handler.hh:25, from /<>/modules/io/src/seq/clustal_io_handler.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 50%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/seq/save.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/seq/save.cc.o -MF CMakeFiles/ost_io.dir/seq/save.cc.o.d -o CMakeFiles/ost_io.dir/seq/save.cc.o -c /<>/modules/io/src/seq/save.cc [ 50%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/seq/fasta_io_handler.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/seq/fasta_io_handler.cc.o -MF CMakeFiles/ost_io.dir/seq/fasta_io_handler.cc.o.d -o CMakeFiles/ost_io.dir/seq/fasta_io_handler.cc.o -c /<>/modules/io/src/seq/fasta_io_handler.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/io_manager.hh:28, from /<>/modules/io/src/seq/save.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/istream:40, from /usr/include/c++/13/sstream:40, from /<>/modules/io/src/seq/save.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/modules/io/src/seq/sequence_io_handler.hh:27, from /<>/modules/io/src/seq/fasta_io_handler.hh:25, from /<>/modules/io/src/seq/fasta_io_handler.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/module_config.hh:22, from /<>/modules/io/src/seq/fasta_io_handler.hh:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 51%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/seq/pir_io_handler.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/seq/pir_io_handler.cc.o -MF CMakeFiles/ost_io.dir/seq/pir_io_handler.cc.o.d -o CMakeFiles/ost_io.dir/seq/pir_io_handler.cc.o -c /<>/modules/io/src/seq/pir_io_handler.cc [ 51%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_conop.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/conop/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_conop.cc.o -MF CMakeFiles/_ost_conop.dir/export_conop.cc.o.d -o CMakeFiles/_ost_conop.dir/export_conop.cc.o -c /<>/modules/conop/pymod/export_conop.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/modules/io/src/seq/sequence_io_handler.hh:27, from /<>/modules/io/src/seq/pir_io_handler.hh:25, from /<>/modules/io/src/seq/pir_io_handler.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/module_config.hh:22, from /<>/modules/io/src/seq/pir_io_handler.hh:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 51%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/seq/promod_io_handler.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/seq/promod_io_handler.cc.o -MF CMakeFiles/ost_io.dir/seq/promod_io_handler.cc.o.d -o CMakeFiles/ost_io.dir/seq/promod_io_handler.cc.o -c /<>/modules/io/src/seq/promod_io_handler.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/conop.hh:24, from /<>/modules/conop/pymod/export_conop.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/conop/pymod/export_conop.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /<>/modules/io/src/seq/promod_io_handler.hh:26, from /<>/modules/io/src/seq/promod_io_handler.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:18, from /usr/include/boost/shared_ptr.hpp:17, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 51%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/seq/hhm_io_handler.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/seq/hhm_io_handler.cc.o -MF CMakeFiles/ost_io.dir/seq/hhm_io_handler.cc.o.d -o CMakeFiles/ost_io.dir/seq/hhm_io_handler.cc.o -c /<>/modules/io/src/seq/hhm_io_handler.cc [ 51%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_diag.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/conop/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_diag.cc.o -MF CMakeFiles/_ost_conop.dir/export_diag.cc.o.d -o CMakeFiles/_ost_conop.dir/export_diag.cc.o -c /<>/modules/conop/pymod/export_diag.cc [ 51%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/seq/pssm_io_handler.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/seq/pssm_io_handler.cc.o -MF CMakeFiles/ost_io.dir/seq/pssm_io_handler.cc.o.d -o CMakeFiles/ost_io.dir/seq/pssm_io_handler.cc.o -c /<>/modules/io/src/seq/pssm_io_handler.cc /<>/modules/io/src/seq/hhm_io_handler.cc: In member function ‘virtual void ost::io::HhmIOHandler::Import(ost::seq::ProfileHandle&, const boost::filesystem::path&)’: /<>/modules/io/src/seq/hhm_io_handler.cc:133:57: warning: ‘std::string boost::filesystem::extension(const path&)’ is deprecated: Use path::extension() instead [-Wdeprecated-declarations] 133 | if (boost::iequals(".gz", boost::filesystem::extension(loc))) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ In file included from /<>/modules/io/src/seq/hhm_io_handler.cc:27: /usr/include/boost/filesystem/convenience.hpp:29:20: note: declared here 29 | inline std::string extension(const path& p) | ^~~~~~~~~ /<>/modules/io/src/seq/pssm_io_handler.cc: In member function ‘virtual void ost::io::PssmIOHandler::Import(ost::seq::ProfileHandle&, const boost::filesystem::path&)’: /<>/modules/io/src/seq/pssm_io_handler.cc:47:57: warning: ‘std::string boost::filesystem::extension(const path&)’ is deprecated: Use path::extension() instead [-Wdeprecated-declarations] 47 | if (boost::iequals(".gz", boost::filesystem::extension(loc))) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ In file included from /<>/modules/io/src/seq/pssm_io_handler.cc:27: /usr/include/boost/filesystem/convenience.hpp:29:20: note: declared here 29 | inline std::string extension(const path& p) | ^~~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/diag.hh:23, from /<>/modules/conop/pymod/export_diag.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/conop/pymod/export_diag.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 51%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/load_map.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/load_map.cc.o -MF CMakeFiles/ost_io.dir/img/load_map.cc.o.d -o CMakeFiles/ost_io.dir/img/load_map.cc.o -c /<>/modules/io/src/img/load_map.cc [ 51%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_dx_handler.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/map_io_dx_handler.cc.o -MF CMakeFiles/ost_io.dir/img/map_io_dx_handler.cc.o.d -o CMakeFiles/ost_io.dir/img/map_io_dx_handler.cc.o -c /<>/modules/io/src/img/map_io_dx_handler.cc [ 51%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_rule_based.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/conop/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_rule_based.cc.o -MF CMakeFiles/_ost_conop.dir/export_rule_based.cc.o.d -o CMakeFiles/_ost_conop.dir/export_rule_based.cc.o -c /<>/modules/conop/pymod/export_rule_based.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/map.hh:22, from /<>/modules/io/src/img/load_map.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /<>/modules/io/src/img/load_map.cc:21: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/io_manager.hh:28, from /<>/modules/io/src/img/load_map.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 51%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_spi_handler.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/map_io_spi_handler.cc.o -MF CMakeFiles/ost_io.dir/img/map_io_spi_handler.cc.o.d -o CMakeFiles/ost_io.dir/img/map_io_spi_handler.cc.o -c /<>/modules/io/src/img/map_io_spi_handler.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/normalizer_factory.hh:27, from /<>/modules/io/src/img/map_io_dx_handler.cc:37: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/stl_tree.h:63, from /usr/include/c++/13/map:62, from /<>/modules/io/src/img/map_io_dx_handler.cc:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/modules/io/src/img/map_io_dx_handler.cc: In member function ‘virtual void ost::io::MapIODxHandler::Import(ost::img::MapHandle&, const boost::filesystem::path&, const ost::io::ImageFormatBase&)’: /<>/modules/io/src/img/map_io_dx_handler.cc:97:57: warning: ‘std::string boost::filesystem::extension(const path&)’ is deprecated: Use path::extension() instead [-Wdeprecated-declarations] 97 | if (boost::iequals(".gz", boost::filesystem::extension(loc))) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ In file included from /<>/modules/io/src/img/map_io_dx_handler.cc:31: /usr/include/boost/filesystem/convenience.hpp:29:20: note: declared here 29 | inline std::string extension(const path& p) | ^~~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/normalizer_factory.hh:27, from /<>/modules/io/src/img/map_io_spi_handler.cc:35: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/istream:40, from /usr/include/c++/13/fstream:40, from /<>/modules/io/src/img/map_io_spi_handler.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/rule_based.hh:22, from /<>/modules/conop/pymod/export_rule_based.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/conop/pymod/export_rule_based.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 51%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_situs_handler.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/map_io_situs_handler.cc.o -MF CMakeFiles/ost_io.dir/img/map_io_situs_handler.cc.o.d -o CMakeFiles/ost_io.dir/img/map_io_situs_handler.cc.o -c /<>/modules/io/src/img/map_io_situs_handler.cc [ 51%] Building CXX object modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_ring_finder.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/conop/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_conop_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/conop/pymod/CMakeFiles/_ost_conop.dir/export_ring_finder.cc.o -MF CMakeFiles/_ost_conop.dir/export_ring_finder.cc.o.d -o CMakeFiles/_ost_conop.dir/export_ring_finder.cc.o -c /<>/modules/conop/pymod/export_ring_finder.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/normalizer_factory.hh:27, from /<>/modules/io/src/img/map_io_situs_handler.cc:34: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/iomanip:42, from /<>/modules/io/src/img/map_io_situs_handler.cc:26: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 51%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_mrc_handler.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/map_io_mrc_handler.cc.o -MF CMakeFiles/ost_io.dir/img/map_io_mrc_handler.cc.o.d -o CMakeFiles/ost_io.dir/img/map_io_mrc_handler.cc.o -c /<>/modules/io/src/img/map_io_mrc_handler.cc [ 51%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_dm3_handler.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/map_io_dm3_handler.cc.o -MF CMakeFiles/ost_io.dir/img/map_io_dm3_handler.cc.o.d -o CMakeFiles/ost_io.dir/img/map_io_dm3_handler.cc.o -c /<>/modules/io/src/img/map_io_dm3_handler.cc [ 51%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_tiff_handler.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/map_io_tiff_handler.cc.o -MF CMakeFiles/ost_io.dir/img/map_io_tiff_handler.cc.o.d -o CMakeFiles/ost_io.dir/img/map_io_tiff_handler.cc.o -c /<>/modules/io/src/img/map_io_tiff_handler.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/ring_finder.hh:27, from /<>/modules/conop/pymod/export_ring_finder.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/conop/pymod/export_ring_finder.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/modules/io/src/img/map_io_dm3_handler.cc:37: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/io/src/img/map_io_dm3_handler.cc:27: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/modules/io/src/img/map_io_mrc_handler.cc:76: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/io/src/img/map_io_mrc_handler.cc:58: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 51%] Linking CXX shared module ../../../stage/lib/python3.12/dist-packages/ost/conop/_ost_conop.so cd /<>/obj-arm-linux-gnueabihf/modules/conop/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_conop.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro -shared -o ../../../stage/lib/python3.12/dist-packages/ost/conop/_ost_conop.so CMakeFiles/_ost_conop.dir/wrap_conop.cc.o CMakeFiles/_ost_conop.dir/export_compound.cc.o CMakeFiles/_ost_conop.dir/export_processor.cc.o CMakeFiles/_ost_conop.dir/export_heuristic.cc.o CMakeFiles/_ost_conop.dir/export_amino_acids.cc.o CMakeFiles/_ost_conop.dir/export_conop.cc.o CMakeFiles/_ost_conop.dir/export_diag.cc.o CMakeFiles/_ost_conop.dir/export_rule_based.cc.o CMakeFiles/_ost_conop.dir/export_ring_finder.cc.o -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_conop.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so.1.83.0 ../../../stage/lib/libost_db.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libsqlite3.so ../../../stage/lib/libost_seq.so.2.5.0 ../../../stage/lib/libost_mol.so.2.5.0 ../../../stage/lib/libost_info.so.2.5.0 ../../../stage/lib/libost_base.so.2.5.0 ../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so.1.83.0 cd /<>/obj-arm-linux-gnueabihf/modules/conop/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/conop/pymod/__init__.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/conop/./__init__.pyc\",\"__init__.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/conop/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/conop/pymod/cleanup.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/conop/./cleanup.pyc\",\"cleanup.py\",doraise=True)" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 51%] Built target _ost_conop make -f modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/build.make modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/gfx/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/DependInfo.cmake "--color=" In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/modules/io/src/img/map_io_tiff_handler.cc:33: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/istream:40, from /usr/include/c++/13/sstream:40, from /<>/modules/io/src/img/map_io_tiff_handler.cc:26: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/build.make modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 51%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/wrap_gfx.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/wrap_gfx.cc.o -MF CMakeFiles/_ost_gfx.dir/wrap_gfx.cc.o.d -o CMakeFiles/_ost_gfx.dir/wrap_gfx.cc.o -c /<>/modules/gfx/pymod/wrap_gfx.cc [ 52%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_dat_handler.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/map_io_dat_handler.cc.o -MF CMakeFiles/ost_io.dir/img/map_io_dat_handler.cc.o.d -o CMakeFiles/ost_io.dir/img/map_io_dat_handler.cc.o -c /<>/modules/io/src/img/map_io_dat_handler.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/modules/io/src/img/map_io_dat_handler.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /usr/include/boost/smart_ptr/shared_array.hpp:21, from /usr/include/boost/shared_array.hpp:17, from /<>/modules/io/src/img/map_io_dat_handler.cc:21: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info_group.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/info.hh:32, from /<>/modules/gfx/pymod/wrap_gfx.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/gfx/pymod/wrap_gfx.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 52%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_ipl_handler.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/map_io_ipl_handler.cc.o -MF CMakeFiles/ost_io.dir/img/map_io_ipl_handler.cc.o.d -o CMakeFiles/ost_io.dir/img/map_io_ipl_handler.cc.o -c /<>/modules/io/src/img/map_io_ipl_handler.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/prim_list.hh:30, from /<>/modules/gfx/pymod/wrap_gfx.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:124:31: warning: ‘virtual geom::AlignedCuboid ost::gfx::GfxObj::GetBoundingBox(bool) const’ was hidden [-Woverloaded-virtual=] 124 | virtual geom::AlignedCuboid GetBoundingBox(bool use_tf=false) const; | ^~~~~~~~~~~~~~ In file included from /<>/modules/gfx/pymod/wrap_gfx.cc:28: /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_test_object.hh:40:31: note: by ‘virtual geom::AlignedCuboid ost::gfx::GfxTestObj::GetBoundingBox() const’ 40 | virtual geom::AlignedCuboid GetBoundingBox() const; | ^~~~~~~~~~~~~~ [ 52%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_jpk_handler.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/map_io_jpk_handler.cc.o -MF CMakeFiles/ost_io.dir/img/map_io_jpk_handler.cc.o.d -o CMakeFiles/ost_io.dir/img/map_io_jpk_handler.cc.o -c /<>/modules/io/src/img/map_io_jpk_handler.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/modules/io/src/img/map_io_ipl_handler.cc:31: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/iomanip:42, from /<>/modules/io/src/img/map_io_ipl_handler.cc:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 52%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_scene.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_scene.cc.o -MF CMakeFiles/_ost_gfx.dir/export_scene.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_scene.cc.o -c /<>/modules/gfx/pymod/export_scene.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/alg_transform.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/transform.hh:24, from /<>/modules/io/src/img/map_io_jpk_handler.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /<>/modules/io/src/img/map_io_jpk_handler.cc:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 52%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_nanoscope_handler.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/map_io_nanoscope_handler.cc.o -MF CMakeFiles/ost_io.dir/img/map_io_nanoscope_handler.cc.o.d -o CMakeFiles/ost_io.dir/img/map_io_nanoscope_handler.cc.o -c /<>/modules/io/src/img/map_io_nanoscope_handler.cc [ 52%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_png_handler.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/map_io_png_handler.cc.o -MF CMakeFiles/ost_io.dir/img/map_io_png_handler.cc.o.d -o CMakeFiles/ost_io.dir/img/map_io_png_handler.cc.o -c /<>/modules/io/src/img/map_io_png_handler.cc [ 52%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/map_io_df3_handler.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/map_io_df3_handler.cc.o -MF CMakeFiles/ost_io.dir/img/map_io_df3_handler.cc.o.d -o CMakeFiles/ost_io.dir/img/map_io_df3_handler.cc.o -c /<>/modules/io/src/img/map_io_df3_handler.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/normalizer_impl.hh:32, from /<>/modules/io/src/img/map_io_nanoscope_handler.cc:34: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/istream:40, from /usr/include/c++/13/fstream:40, from /<>/modules/io/src/img/map_io_nanoscope_handler.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/normalizer_impl.hh:32, from /<>/modules/io/src/img/map_io_png_handler.cc:34: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/io/src/img/map_io_png_handler.cc:27: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /<>/modules/gfx/pymod/export_scene.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/gfx/pymod/export_scene.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 52%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/image_format.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/image_format.cc.o -MF CMakeFiles/ost_io.dir/img/image_format.cc.o.d -o CMakeFiles/ost_io.dir/img/image_format.cc.o -c /<>/modules/io/src/img/image_format.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/normalizer_factory.hh:27, from /<>/modules/io/src/img/map_io_df3_handler.cc:34: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/iomanip:42, from /<>/modules/io/src/img/map_io_df3_handler.cc:26: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 52%] Building CXX object modules/io/src/CMakeFiles/ost_io.dir/img/tiff_util.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_IO -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/src/CMakeFiles/ost_io.dir/img/tiff_util.cc.o -MF CMakeFiles/ost_io.dir/img/tiff_util.cc.o.d -o CMakeFiles/ost_io.dir/img/tiff_util.cc.o -c /<>/modules/io/src/img/tiff_util.cc [ 52%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_gfx_node.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_gfx_node.cc.o -MF CMakeFiles/_ost_gfx.dir/export_gfx_node.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_gfx_node.cc.o -c /<>/modules/gfx/pymod/export_gfx_node.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/normalizer_factory.hh:27, from /<>/modules/io/src/img/tiff_util.hh:27, from /<>/modules/io/src/img/tiff_util.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/complex:44, from /<>/modules/io/src/img/tiff_util.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 53%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_symmetry_node.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_symmetry_node.cc.o -MF CMakeFiles/_ost_gfx.dir/export_symmetry_node.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_symmetry_node.cc.o -c /<>/modules/gfx/pymod/export_symmetry_node.cc [ 53%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_gfx_obj.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_gfx_obj.cc.o -MF CMakeFiles/_ost_gfx.dir/export_gfx_obj.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_gfx_obj.cc.o -c /<>/modules/gfx/pymod/export_gfx_obj.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/symmetry_node.hh:22, from /<>/modules/gfx/pymod/export_symmetry_node.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/gfx/pymod/export_symmetry_node.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 53%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_entity.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_entity.cc.o -MF CMakeFiles/_ost_gfx.dir/export_entity.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_entity.cc.o -c /<>/modules/gfx/pymod/export_entity.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /<>/modules/gfx/pymod/export_gfx_obj.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/gfx/pymod/export_gfx_obj.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 53%] Linking CXX shared library ../../../stage/lib/libost_io.so cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_io.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong 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CMakeFiles/ost_io.dir/seq/pssm_io_handler.cc.o CMakeFiles/ost_io.dir/img/load_map.cc.o CMakeFiles/ost_io.dir/img/map_io_dx_handler.cc.o CMakeFiles/ost_io.dir/img/map_io_spi_handler.cc.o CMakeFiles/ost_io.dir/img/map_io_situs_handler.cc.o CMakeFiles/ost_io.dir/img/map_io_mrc_handler.cc.o CMakeFiles/ost_io.dir/img/map_io_dm3_handler.cc.o CMakeFiles/ost_io.dir/img/map_io_tiff_handler.cc.o CMakeFiles/ost_io.dir/img/map_io_dat_handler.cc.o CMakeFiles/ost_io.dir/img/map_io_ipl_handler.cc.o CMakeFiles/ost_io.dir/img/map_io_jpk_handler.cc.o CMakeFiles/ost_io.dir/img/map_io_nanoscope_handler.cc.o CMakeFiles/ost_io.dir/img/map_io_png_handler.cc.o CMakeFiles/ost_io.dir/img/map_io_df3_handler.cc.o CMakeFiles/ost_io.dir/img/image_format.cc.o CMakeFiles/ost_io.dir/img/tiff_util.cc.o -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_mol_alg.so.2.5.0 ../../../stage/lib/libost_img_alg.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libtiff.so /usr/lib/arm-linux-gnueabihf/libpng.so /usr/lib/arm-linux-gnueabihf/libz.so ../../../stage/lib/libost_conop.so.2.5.0 ../../../stage/lib/libost_db.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libsqlite3.so ../../../stage/lib/libost_img.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so /usr/lib/arm-linux-gnueabihf/libboost_program_options.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_thread.so.1.83.0 ../../../stage/lib/libost_seq_alg.so.2.5.0 ../../../stage/lib/libost_seq.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so.1.83.0 ../../../stage/lib/libost_mol.so.2.5.0 ../../../stage/lib/libost_info.so.2.5.0 ../../../stage/lib/libost_base.so.2.5.0 ../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 In file included from /usr/include/c++/13/bits/stl_algobase.h:64: /usr/include/c++/13/bits/stl_pair.h: In instantiation of ‘constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = float&; _T2 = float&; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp>::type = float; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp2>::type = float]’: /<>/modules/gfx/pymod/color_by_def.hh:124:49: required from here /usr/include/c++/13/bits/stl_pair.h:922:5: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 922 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ [ 53%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_surface.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_surface.cc.o -MF CMakeFiles/_ost_gfx.dir/export_surface.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_surface.cc.o -c /<>/modules/gfx/pymod/export_surface.cc cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E cmake_symlink_library ../../../stage/lib/libost_io.so.2.5.0 ../../../stage/lib/libost_io.so.2.5 ../../../stage/lib/libost_io.so make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 53%] Built target ost_io make -f modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/build.make modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/mol/alg/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/build.make modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 53%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/wrap_mol_alg.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/wrap_mol_alg.cc.o -MF CMakeFiles/_ost_mol_alg.dir/wrap_mol_alg.cc.o.d -o CMakeFiles/_ost_mol_alg.dir/wrap_mol_alg.cc.o -c /<>/modules/mol/alg/pymod/wrap_mol_alg.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:29, from /<>/modules/gfx/pymod/export_entity.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/gfx/pymod/export_entity.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:64: /usr/include/c++/13/bits/stl_pair.h: In instantiation of ‘constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = float&; _T2 = float&; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp>::type = float; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp2>::type = float]’: /<>/modules/gfx/pymod/color_by_def.hh:124:49: required from here /usr/include/c++/13/bits/stl_pair.h:922:5: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 922 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface_prop.hh:25, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface_handle.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/surface.hh:31, from /<>/modules/gfx/pymod/export_surface.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/gfx/pymod/export_surface.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:64: /usr/include/c++/13/bits/stl_pair.h: In instantiation of ‘constexpr std::pair::type>::__type, typename std::__strip_reference_wrapper::type>::__type> std::make_pair(_T1&&, _T2&&) [with _T1 = float&; _T2 = float&; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp>::type = float; typename __strip_reference_wrapper::type>::__type = float; typename decay<_Tp2>::type = float]’: /<>/modules/gfx/pymod/color_by_def.hh:124:49: required from here /usr/include/c++/13/bits/stl_pair.h:922:5: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 922 | make_pair(_T1&& __x, _T2&& __y) | ^~~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/local_dist_diff_test.hh:23, from /<>/modules/mol/alg/pymod/wrap_mol_alg.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/alg/pymod/wrap_mol_alg.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/local_dist_diff_test.hh:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/local_dist_diff_test.hh:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/filter_clashes.hh: In member function ‘std::pair ost::mol::alg::StereoChemicalBondViolation::GetAllowedRange() const’: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/filter_clashes.hh:91:48: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 91 | std::pair GetAllowedRange() const { return allowed_range_; } | ^ [ 53%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_primitives.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_primitives.cc.o -MF CMakeFiles/_ost_gfx.dir/export_primitives.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_primitives.cc.o -c /<>/modules/gfx/pymod/export_primitives.cc [ 53%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_primlist.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_primlist.cc.o -MF CMakeFiles/_ost_gfx.dir/export_primlist.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_primlist.cc.o -c /<>/modules/gfx/pymod/export_primlist.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/primitives.hh:22, from /<>/modules/gfx/pymod/export_primitives.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/gfx/pymod/export_primitives.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 53%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_scene_observer.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_scene_observer.cc.o -MF CMakeFiles/_ost_gfx.dir/export_scene_observer.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_scene_observer.cc.o -c /<>/modules/gfx/pymod/export_scene_observer.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/prim_list.hh:28, from /<>/modules/gfx/pymod/export_primlist.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/gfx/pymod/export_primlist.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 53%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_render_options.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_render_options.cc.o -MF CMakeFiles/_ost_gfx.dir/export_render_options.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_render_options.cc.o -c /<>/modules/gfx/pymod/export_render_options.cc [ 53%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_color.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_color.cc.o -MF CMakeFiles/_ost_gfx.dir/export_color.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_color.cc.o -c /<>/modules/gfx/pymod/export_color.cc [ 53%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_gradient.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_gradient.cc.o -MF CMakeFiles/_ost_gfx.dir/export_gradient.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_gradient.cc.o -c /<>/modules/gfx/pymod/export_gradient.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /<>/modules/gfx/pymod/export_color.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/gfx/pymod/export_color.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gradient.hh:28, from /<>/modules/gfx/pymod/export_gradient.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/gfx/pymod/export_gradient.cc:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 53%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_color_ops.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_color_ops.cc.o -MF CMakeFiles/_ost_gfx.dir/export_color_ops.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_color_ops.cc.o -c /<>/modules/gfx/pymod/export_color_ops.cc [ 55%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_glwin_base.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_glwin_base.cc.o -MF CMakeFiles/_ost_gfx.dir/export_glwin_base.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_glwin_base.cc.o -c /<>/modules/gfx/pymod/export_glwin_base.cc [ 55%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_exporter.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_exporter.cc.o -MF CMakeFiles/_ost_gfx.dir/export_exporter.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_exporter.cc.o -c /<>/modules/gfx/pymod/export_exporter.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/color_op.hh:24, from /<>/modules/gfx/pymod/export_color_ops.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/gfx/pymod/export_color_ops.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 55%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_bitmap.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_bitmap.cc.o -MF CMakeFiles/_ost_gfx.dir/export_bitmap.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_bitmap.cc.o -c /<>/modules/gfx/pymod/export_bitmap.cc [ 55%] Building CXX object modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_map.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gfx_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/export_map.cc.o -MF CMakeFiles/_ost_gfx.dir/export_map.cc.o.d -o CMakeFiles/_ost_gfx.dir/export_map.cc.o -c /<>/modules/gfx/pymod/export_map.cc [ 55%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_svd_superpose.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_svd_superpose.cc.o -MF CMakeFiles/_ost_mol_alg.dir/export_svd_superpose.cc.o.d -o CMakeFiles/_ost_mol_alg.dir/export_svd_superpose.cc.o -c /<>/modules/mol/alg/pymod/export_svd_superpose.cc [ 55%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_clash.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_clash.cc.o -MF CMakeFiles/_ost_mol_alg.dir/export_clash.cc.o.d -o CMakeFiles/_ost_mol_alg.dir/export_clash.cc.o -c /<>/modules/mol/alg/pymod/export_clash.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/map.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/map_iso.hh:28, from /<>/modules/gfx/pymod/export_map.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/gfx/pymod/export_map.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/svd_superpose.hh:27, from /<>/modules/mol/alg/pymod/export_svd_superpose.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/alg/pymod/export_svd_superpose.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/clash_score.hh:26, from /<>/modules/mol/alg/pymod/export_clash.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/alg/pymod/export_clash.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 55%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_trajectory_analysis.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_trajectory_analysis.cc.o -MF CMakeFiles/_ost_mol_alg.dir/export_trajectory_analysis.cc.o.d -o CMakeFiles/_ost_mol_alg.dir/export_trajectory_analysis.cc.o -c /<>/modules/mol/alg/pymod/export_trajectory_analysis.cc [ 56%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_structure_analysis.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_structure_analysis.cc.o -MF CMakeFiles/_ost_mol_alg.dir/export_structure_analysis.cc.o.d -o CMakeFiles/_ost_mol_alg.dir/export_structure_analysis.cc.o -c /<>/modules/mol/alg/pymod/export_structure_analysis.cc [ 56%] Linking CXX shared module ../../../stage/lib/python3.12/dist-packages/ost/gfx/_ost_gfx.so cd /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/pymod/gradients.xml /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/scene/gradients.xml cd /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_gfx.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro -shared -o ../../../stage/lib/python3.12/dist-packages/ost/gfx/_ost_gfx.so CMakeFiles/_ost_gfx.dir/wrap_gfx.cc.o CMakeFiles/_ost_gfx.dir/export_scene.cc.o CMakeFiles/_ost_gfx.dir/export_gfx_node.cc.o CMakeFiles/_ost_gfx.dir/export_symmetry_node.cc.o CMakeFiles/_ost_gfx.dir/export_gfx_obj.cc.o CMakeFiles/_ost_gfx.dir/export_entity.cc.o CMakeFiles/_ost_gfx.dir/export_surface.cc.o CMakeFiles/_ost_gfx.dir/export_primitives.cc.o CMakeFiles/_ost_gfx.dir/export_primlist.cc.o CMakeFiles/_ost_gfx.dir/export_scene_observer.cc.o CMakeFiles/_ost_gfx.dir/export_render_options.cc.o CMakeFiles/_ost_gfx.dir/export_color.cc.o CMakeFiles/_ost_gfx.dir/export_gradient.cc.o CMakeFiles/_ost_gfx.dir/export_color_ops.cc.o CMakeFiles/_ost_gfx.dir/export_glwin_base.cc.o CMakeFiles/_ost_gfx.dir/export_exporter.cc.o CMakeFiles/_ost_gfx.dir/export_bitmap.cc.o CMakeFiles/_ost_gfx.dir/export_map.cc.o -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_gfx.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so.1.83.0 ../../../stage/lib/libost_conop.so.2.5.0 ../../../stage/lib/libost_db.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libsqlite3.so ../../../stage/lib/libost_seq.so.2.5.0 ../../../stage/lib/libost_mol.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so.1.83.0 ../../../stage/lib/libost_img_alg.so.2.5.0 ../../../stage/lib/libost_img.so.2.5.0 ../../../stage/lib/libost_info.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 ../../../stage/lib/libost_base.so.2.5.0 ../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so /usr/lib/arm-linux-gnueabihf/libOpenGL.so /usr/lib/arm-linux-gnueabihf/libGLX.so /usr/lib/arm-linux-gnueabihf/libGLU.so /usr/lib/arm-linux-gnueabihf/libpng.so /usr/lib/arm-linux-gnueabihf/libz.so [ 56%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_contact_overlap.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_contact_overlap.cc.o -MF CMakeFiles/_ost_mol_alg.dir/export_contact_overlap.cc.o.d -o CMakeFiles/_ost_mol_alg.dir/export_contact_overlap.cc.o -c /<>/modules/mol/alg/pymod/export_contact_overlap.cc cd /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gfx/pymod/__init__.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gfx/./__init__.pyc\",\"__init__.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gfx/pymod/py_gfx_obj.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gfx/./py_gfx_obj.pyc\",\"py_gfx_obj.py\",doraise=True)" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 56%] Built target _ost_gfx make -f modules/io/tests/CMakeFiles/test_mae_standalone.dir/build.make modules/io/tests/CMakeFiles/test_mae_standalone.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/io/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/io/tests /<>/obj-arm-linux-gnueabihf/modules/io/tests/CMakeFiles/test_mae_standalone.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/io/tests/CMakeFiles/test_mae_standalone.dir/build.make modules/io/tests/CMakeFiles/test_mae_standalone.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 56%] Building CXX object modules/io/tests/CMakeFiles/test_mae_standalone.dir/test_mae_standalone.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/test_mae_standalone.dir/test_mae_standalone.cc.o -MF CMakeFiles/test_mae_standalone.dir/test_mae_standalone.cc.o.d -o CMakeFiles/test_mae_standalone.dir/test_mae_standalone.cc.o -c /<>/modules/io/tests/test_mae_standalone.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/conop.hh:24, from /<>/modules/io/tests/test_mae_standalone.cc:2: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /<>/modules/io/tests/test_mae_standalone.cc:1: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/trajectory_analysis.hh:29, from /<>/modules/mol/alg/pymod/export_trajectory_analysis.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/alg/pymod/export_trajectory_analysis.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 56%] Linking CXX executable ../../../stage/bin/test_mae_standalone cd /<>/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_mae_standalone.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro CMakeFiles/test_mae_standalone.dir/test_mae_standalone.cc.o -o ../../../stage/bin/test_mae_standalone -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib ../../../stage/lib/libost_io.so.2.5.0 ../../../stage/lib/libost_mol_alg.so.2.5.0 ../../../stage/lib/libost_conop.so.2.5.0 ../../../stage/lib/libost_db.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libsqlite3.so /usr/lib/arm-linux-gnueabihf/libboost_program_options.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_thread.so.1.83.0 ../../../stage/lib/libost_seq_alg.so.2.5.0 ../../../stage/lib/libost_seq.so.2.5.0 ../../../stage/lib/libost_mol.so.2.5.0 ../../../stage/lib/libost_img_alg.so.2.5.0 ../../../stage/lib/libost_img.so.2.5.0 ../../../stage/lib/libost_info.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 ../../../stage/lib/libost_base.so.2.5.0 ../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libtiff.so /usr/lib/arm-linux-gnueabihf/libpng.so /usr/lib/arm-linux-gnueabihf/libz.so make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 56%] Built target test_mae_standalone make -f modules/mol/alg/src/CMakeFiles/lddt.dir/build.make modules/mol/alg/src/CMakeFiles/lddt.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/mol/alg/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src/CMakeFiles/lddt.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/mol/alg/src/CMakeFiles/lddt.dir/build.make modules/mol/alg/src/CMakeFiles/lddt.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 56%] Building CXX object modules/mol/alg/src/CMakeFiles/lddt.dir/lddt.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/alg/src/CMakeFiles/lddt.dir/lddt.cc.o -MF CMakeFiles/lddt.dir/lddt.cc.o.d -o CMakeFiles/lddt.dir/lddt.cc.o -c /<>/modules/mol/alg/src/lddt.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/structure_analysis.hh:28, from /<>/modules/mol/alg/pymod/export_structure_analysis.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/alg/pymod/export_structure_analysis.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/contact_overlap.hh:6, from /<>/modules/mol/alg/pymod/export_contact_overlap.cc:4: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/alg/pymod/export_contact_overlap.cc:1: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/contact_overlap.hh:8: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 56%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_accessibility.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_accessibility.cc.o -MF CMakeFiles/_ost_mol_alg.dir/export_accessibility.cc.o.d -o CMakeFiles/_ost_mol_alg.dir/export_accessibility.cc.o -c /<>/modules/mol/alg/pymod/export_accessibility.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/chain_view.hh:23, from /<>/modules/mol/alg/src/lddt.cc:30: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/iomanip:42, from /<>/modules/mol/alg/src/lddt.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/local_dist_diff_test.hh:24, from /<>/modules/mol/alg/src/lddt.cc:31: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/local_dist_diff_test.hh:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/filter_clashes.hh: In member function ‘std::pair ost::mol::alg::StereoChemicalBondViolation::GetAllowedRange() const’: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/filter_clashes.hh:91:48: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 91 | std::pair GetAllowedRange() const { return allowed_range_; } | ^ In file included from /<>/modules/mol/alg/src/lddt.cc:39: /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/amino_acids.hh: At global scope: /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/amino_acids.hh:61:42: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 61 | class AminoAcidSetIterator : public std::iterator>/modules/mol/alg/src/lddt.cc: In function ‘ost::conop::CompoundLibPtr load_compound_lib(const String&)’: /<>/modules/mol/alg/src/lddt.cc:138:48: warning: ‘boost::filesystem::path boost::filesystem::path::branch_path() const’ is deprecated: Use path::parent_path() instead [-Wdeprecated-declarations] 138 | fs::path path_only=path_and_exe.branch_path(); | ~~~~~~~~~~~~~~~~~~~~~~~~^~ In file included from /usr/include/boost/filesystem/fstream.hpp:17, from /<>/modules/mol/alg/src/lddt.cc:26: /usr/include/boost/filesystem/path.hpp:1129:10: note: declared here 1129 | path branch_path() const { return parent_path(); } | ^~~~~~~~~~~ /<>/modules/mol/alg/src/lddt.cc:139:48: warning: ‘boost::filesystem::path boost::filesystem::path::branch_path() const’ is deprecated: Use path::parent_path() instead [-Wdeprecated-declarations] 139 | fs::path share_path = path_only.branch_path(); | ~~~~~~~~~~~~~~~~~~~~~^~ /usr/include/boost/filesystem/path.hpp:1129:10: note: declared here 1129 | path branch_path() const { return parent_path(); } | ^~~~~~~~~~~ [ 56%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_sec_structure.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_sec_structure.cc.o -MF CMakeFiles/_ost_mol_alg.dir/export_sec_structure.cc.o.d -o CMakeFiles/_ost_mol_alg.dir/export_sec_structure.cc.o -c /<>/modules/mol/alg/pymod/export_sec_structure.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/accessibility.hh:23, from /<>/modules/mol/alg/pymod/export_accessibility.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/alg/pymod/export_accessibility.cc:21: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_struct.hh:25, from /<>/modules/mol/alg/pymod/export_sec_structure.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/alg/pymod/export_sec_structure.cc:21: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 56%] Linking CXX executable ../../../../stage/bin/lddt cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/lddt.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro CMakeFiles/lddt.dir/lddt.cc.o -o ../../../../stage/bin/lddt -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: ../../../../stage/lib/libost_io.so.2.5.0 ../../../../stage/lib/libost_mol_alg.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_program_options.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_thread.so.1.83.0 ../../../../stage/lib/libost_seq_alg.so.2.5.0 ../../../../stage/lib/libost_img_alg.so.2.5.0 ../../../../stage/lib/libost_img.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so ../../../../stage/lib/libost_conop.so.2.5.0 ../../../../stage/lib/libost_db.so.2.5.0 ../../../../stage/lib/libost_seq.so.2.5.0 ../../../../stage/lib/libost_mol.so.2.5.0 ../../../../stage/lib/libost_info.so.2.5.0 ../../../../stage/lib/libost_base.so.2.5.0 ../../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libsqlite3.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libtiff.so /usr/lib/arm-linux-gnueabihf/libpng.so /usr/lib/arm-linux-gnueabihf/libz.so make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 56%] Built target lddt make -f tools/molck/CMakeFiles/molck.dir/build.make tools/molck/CMakeFiles/molck.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/tools/molck /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/tools/molck /<>/obj-arm-linux-gnueabihf/tools/molck/CMakeFiles/molck.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f tools/molck/CMakeFiles/molck.dir/build.make tools/molck/CMakeFiles/molck.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 56%] Building CXX object tools/molck/CMakeFiles/molck.dir/main.cc.o cd /<>/obj-arm-linux-gnueabihf/tools/molck && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT tools/molck/CMakeFiles/molck.dir/main.cc.o -MF CMakeFiles/molck.dir/main.cc.o.d -o CMakeFiles/molck.dir/main.cc.o -c /<>/tools/molck/main.cc [ 56%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_non_standard.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_non_standard.cc.o -MF CMakeFiles/_ost_mol_alg.dir/export_non_standard.cc.o.d -o CMakeFiles/_ost_mol_alg.dir/export_non_standard.cc.o -c /<>/modules/mol/alg/pymod/export_non_standard.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/conop.hh:24, from /<>/tools/molck/main.cc:8: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/program_options/errors.hpp:12, from /usr/include/boost/program_options/options_description.hpp:12, from /usr/include/boost/program_options.hpp:15, from /<>/tools/molck/main.cc:2: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/pdb_reader.hh:28, from /<>/tools/molck/main.cc:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/tools/molck/main.cc: In function ‘ost::conop::CompoundLibPtr load_compound_lib(const String&)’: /<>/tools/molck/main.cc:119:48: warning: ‘boost::filesystem::path boost::filesystem::path::branch_path() const’ is deprecated: Use path::parent_path() instead [-Wdeprecated-declarations] 119 | fs::path path_only=path_and_exe.branch_path(); | ~~~~~~~~~~~~~~~~~~~~~~~~^~ In file included from /<>/tools/molck/main.cc:3: /usr/include/boost/filesystem/path.hpp:1129:10: note: declared here 1129 | path branch_path() const { return parent_path(); } | ^~~~~~~~~~~ /<>/tools/molck/main.cc:120:48: warning: ‘boost::filesystem::path boost::filesystem::path::branch_path() const’ is deprecated: Use path::parent_path() instead [-Wdeprecated-declarations] 120 | fs::path share_path = path_only.branch_path(); | ~~~~~~~~~~~~~~~~~~~~~^~ /usr/include/boost/filesystem/path.hpp:1129:10: note: declared here 1129 | path branch_path() const { return parent_path(); } | ^~~~~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/alg/pymod/export_non_standard.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/alg/pymod/export_non_standard.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 56%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_molck.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_molck.cc.o -MF CMakeFiles/_ost_mol_alg.dir/export_molck.cc.o.d -o CMakeFiles/_ost_mol_alg.dir/export_molck.cc.o -c /<>/modules/mol/alg/pymod/export_molck.cc [ 56%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_membrane.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_membrane.cc.o -MF CMakeFiles/_ost_mol_alg.dir/export_membrane.cc.o.d -o CMakeFiles/_ost_mol_alg.dir/export_membrane.cc.o -c /<>/modules/mol/alg/pymod/export_membrane.cc [ 56%] Building CXX object modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_entity_to_density.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_mol_alg_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/export_entity_to_density.cc.o -MF CMakeFiles/_ost_mol_alg.dir/export_entity_to_density.cc.o.d -o CMakeFiles/_ost_mol_alg.dir/export_entity_to_density.cc.o -c /<>/modules/mol/alg/pymod/export_entity_to_density.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/molck.hh:23, from /<>/modules/mol/alg/pymod/export_molck.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/modules/mol/alg/pymod/export_molck.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/find_membrane.hh:22, from /<>/modules/mol/alg/pymod/export_membrane.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/alg/pymod/export_membrane.cc:21: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 56%] Linking CXX executable ../../stage/bin/molck cd /<>/obj-arm-linux-gnueabihf/tools/molck && /usr/bin/cmake -E cmake_link_script CMakeFiles/molck.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro CMakeFiles/molck.dir/main.cc.o -o ../../stage/bin/molck -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: ../../stage/lib/libost_io.so.2.5.0 ../../stage/lib/libost_mol_alg.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_program_options.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_thread.so.1.83.0 ../../stage/lib/libost_seq_alg.so.2.5.0 ../../stage/lib/libost_conop.so.2.5.0 ../../stage/lib/libost_db.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libsqlite3.so ../../stage/lib/libost_seq.so.2.5.0 ../../stage/lib/libost_mol.so.2.5.0 ../../stage/lib/libost_img_alg.so.2.5.0 ../../stage/lib/libost_img.so.2.5.0 ../../stage/lib/libost_info.so.2.5.0 ../../stage/lib/libost_base.so.2.5.0 ../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libtiff.so /usr/lib/arm-linux-gnueabihf/libpng.so /usr/lib/arm-linux-gnueabihf/libz.so In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/entity_to_density.hh:4, from /<>/modules/mol/alg/pymod/export_entity_to_density.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/mol/alg/pymod/export_entity_to_density.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 56%] Built target molck make -f modules/conop/src/CMakeFiles/chemdict_tool.dir/build.make modules/conop/src/CMakeFiles/chemdict_tool.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/conop/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/conop/src /<>/obj-arm-linux-gnueabihf/modules/conop/src/CMakeFiles/chemdict_tool.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/conop/src/CMakeFiles/chemdict_tool.dir/build.make modules/conop/src/CMakeFiles/chemdict_tool.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 56%] Building CXX object modules/conop/src/CMakeFiles/chemdict_tool.dir/chemdict_tool.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/conop/src/CMakeFiles/chemdict_tool.dir/chemdict_tool.cc.o -MF CMakeFiles/chemdict_tool.dir/chemdict_tool.cc.o.d -o CMakeFiles/chemdict_tool.dir/chemdict_tool.cc.o -c /<>/modules/conop/src/chemdict_tool.cc make -f modules/gui/src/CMakeFiles/ost_gui.dir/build.make modules/gui/src/CMakeFiles/ost_gui.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 56%] Generating tools/moc_tool_options_win.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/tools && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_options_win.cpp_parameters [ 56%] Generating data_viewer/moc_argand.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_argand.cpp_parameters [ 56%] Generating data_viewer/moc_data_viewer.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_data_viewer.cpp_parameters [ 56%] Generating data_viewer/moc_data_viewer_panel_base.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_data_viewer_panel_base.cpp_parameters [ 56%] Generating data_viewer/moc_fft_panel.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_fft_panel.cpp_parameters [ 56%] Generating data_viewer/moc_info_panel.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_info_panel.cpp_parameters [ 56%] Generating data_viewer/moc_null_overlay.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_null_overlay.cpp_parameters [ 56%] Generating data_viewer/moc_overlay_base.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_overlay_base.cpp_parameters [ 57%] Generating data_viewer/moc_overlay_manager_gui.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_overlay_manager_gui.cpp_parameters [ 57%] Generating data_viewer/moc_pointlist_overlay_base.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_pointlist_overlay_base.cpp_parameters [ 57%] Generating messages/moc_log_reader.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/messages && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/messages/moc_log_reader.cpp_parameters [ 57%] Generating messages/moc_message_box_widget.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/messages && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/messages/moc_message_box_widget.cpp_parameters [ 57%] Generating messages/moc_message_widget.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/messages && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/messages/moc_message_widget.cpp_parameters [ 57%] Generating moc_dock_widget.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_dock_widget.cpp_parameters [ 57%] Generating moc_file_browser.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_file_browser.cpp_parameters [ 57%] Generating moc_file_type_dialog.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_file_type_dialog.cpp_parameters [ 57%] Generating moc_file_viewer.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_file_viewer.cpp_parameters [ 57%] Generating moc_gl_canvas.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_gl_canvas.cpp_parameters [ 57%] Generating moc_gl_win.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_gl_win.cpp_parameters [ 57%] Generating moc_gosty_app.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_gosty_app.cpp_parameters [ 57%] Generating moc_main.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_main.cpp_parameters [ 57%] Generating moc_main_area.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_main_area.cpp_parameters [ 57%] Generating moc_main_window.cpp [ 58%] Generating moc_perspective.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_main_window.cpp_parameters cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_perspective.cpp_parameters [ 58%] Generating moc_scene_selection.cpp [ 58%] Generating moc_scene_menu.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_scene_menu.cpp_parameters cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_scene_selection.cpp_parameters [ 58%] Generating moc_widget_geom_handler.cpp [ 58%] Generating moc_widget.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_widget.cpp_parameters cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_widget_geom_handler.cpp_parameters [ 58%] Generating panels/moc_bottom_bar.cpp [ 58%] Generating moc_widget_pool.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_bottom_bar.cpp_parameters cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_widget_pool.cpp_parameters [ 58%] Generating panels/moc_button_bar.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_button_bar.cpp_parameters [ 58%] Generating panels/moc_button_box.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_button_box.cpp_parameters [ 58%] Generating panels/moc_event_button.cpp [ 58%] Generating panels/moc_drop_box.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_event_button.cpp_parameters cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_drop_box.cpp_parameters [ 58%] Generating panels/moc_panel_bar.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_panel_bar.cpp_parameters [ 58%] Generating panels/moc_panel_bar_widget_holder.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_panel_bar_widget_holder.cpp_parameters [ 58%] Generating panels/moc_panel_manager.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_panel_manager.cpp_parameters [ 60%] Generating panels/moc_panel_widget_container.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_panel_widget_container.cpp_parameters [ 60%] Generating panels/moc_side_bar.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_side_bar.cpp_parameters [ 60%] Generating panels/moc_splitter_panel_bar.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_splitter_panel_bar.cpp_parameters [ 60%] Generating panels/moc_tabbed_panel_bar.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/panels && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_tabbed_panel_bar.cpp_parameters [ 60%] Generating python_shell/moc_completer_base.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_completer_base.cpp_parameters [ 61%] Generating python_shell/moc_gutter.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_gutter.cpp_parameters [ 61%] Generating python_shell/moc_main_thread_runner.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_main_thread_runner.cpp_parameters [ 61%] Generating python_shell/moc_output_redirector.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_output_redirector.cpp_parameters [ 61%] Generating python_shell/moc_path_completer.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_path_completer.cpp_parameters [ 61%] Generating python_shell/moc_python_completer.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_python_completer.cpp_parameters [ 61%] Generating python_shell/moc_python_interpreter.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_python_interpreter.cpp_parameters [ 61%] Generating python_shell/moc_python_interpreter_worker.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_python_interpreter_worker.cpp_parameters [ 61%] Generating python_shell/moc_python_namespace_tree_model.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_python_namespace_tree_model.cpp_parameters [ 61%] Generating python_shell/moc_python_shell.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_python_shell.cpp_parameters [ 61%] Generating python_shell/moc_python_shell_widget.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_python_shell_widget.cpp_parameters [ 61%] Generating python_shell/moc_state.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_state.cpp_parameters [ 62%] Generating python_shell/moc_state_machine.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_state_machine.cpp_parameters [ 62%] Generating python_shell/moc_text_logger.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_text_logger.cpp_parameters [ 62%] Generating python_shell/moc_transition.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_transition.cpp_parameters [ 62%] Generating python_shell/moc_transition_guard.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_transition_guard.cpp_parameters [ 62%] Generating scene_win/moc_context_menu.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_context_menu.cpp_parameters [ 62%] Generating scene_win/moc_current_selection_node.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_current_selection_node.cpp_parameters In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/compound_lib_base.hh:5, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/compound_lib.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/chemdict_parser.hh:30, from /<>/modules/conop/src/chemdict_tool.cc:32: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/conop/src/chemdict_tool.cc:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/modules/conop/src/chemdict_tool.cc: In function ‘int main(int, const char**)’: /<>/modules/conop/src/chemdict_tool.cc:69:57: warning: ‘std::string boost::filesystem::extension(const path&)’ is deprecated: Use path::extension() instead [-Wdeprecated-declarations] 69 | if (boost::iequals(".gz", boost::filesystem::extension(argv[2]))) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ In file included from /<>/modules/conop/src/chemdict_tool.cc:27: /usr/include/boost/filesystem/convenience.hpp:29:20: note: declared here 29 | inline std::string extension(const path& p) | ^~~~~~~~~ [ 62%] Linking CXX shared module ../../../../stage/lib/python3.12/dist-packages/ost/mol/alg/_ost_mol_alg.so cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_mol_alg.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro -shared -o ../../../../stage/lib/python3.12/dist-packages/ost/mol/alg/_ost_mol_alg.so CMakeFiles/_ost_mol_alg.dir/wrap_mol_alg.cc.o CMakeFiles/_ost_mol_alg.dir/export_svd_superpose.cc.o CMakeFiles/_ost_mol_alg.dir/export_clash.cc.o CMakeFiles/_ost_mol_alg.dir/export_trajectory_analysis.cc.o CMakeFiles/_ost_mol_alg.dir/export_structure_analysis.cc.o CMakeFiles/_ost_mol_alg.dir/export_contact_overlap.cc.o CMakeFiles/_ost_mol_alg.dir/export_accessibility.cc.o CMakeFiles/_ost_mol_alg.dir/export_sec_structure.cc.o CMakeFiles/_ost_mol_alg.dir/export_non_standard.cc.o CMakeFiles/_ost_mol_alg.dir/export_molck.cc.o CMakeFiles/_ost_mol_alg.dir/export_membrane.cc.o CMakeFiles/_ost_mol_alg.dir/export_entity_to_density.cc.o -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: ../../../../stage/lib/libost_mol_alg.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_program_options.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_thread.so.1.83.0 ../../../../stage/lib/libost_img_alg.so.2.5.0 ../../../../stage/lib/libost_img.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so ../../../../stage/lib/libost_seq_alg.so.2.5.0 ../../../../stage/lib/libost_conop.so.2.5.0 ../../../../stage/lib/libost_db.so.2.5.0 ../../../../stage/lib/libost_seq.so.2.5.0 ../../../../stage/lib/libost_mol.so.2.5.0 ../../../../stage/lib/libost_info.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so.1.83.0 ../../../../stage/lib/libost_base.so.2.5.0 ../../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libsqlite3.so [ 62%] Generating scene_win/moc_custom_part_node.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_custom_part_node.cpp_parameters [ 64%] Generating scene_win/moc_entity_node.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_entity_node.cpp_parameters [ 64%] Generating scene_win/moc_entity_part_node.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_entity_part_node.cpp_parameters cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/mol/alg/pymod/__init__.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./__init__.pyc\",\"__init__.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/mol/alg/pymod/views.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./views.pyc\",\"views.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/mol/alg/pymod/superpose.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./superpose.pyc\",\"superpose.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/mol/alg/pymod/qsscoring.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./qsscoring.pyc\",\"qsscoring.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/mol/alg/pymod/trajectory_analysis.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./trajectory_analysis.pyc\",\"trajectory_analysis.py\",doraise=True)" trajectory_analysis.py:59: SyntaxWarning: invalid escape sequence '\ ' trajectory_analysis.py:98: SyntaxWarning: invalid escape sequence '\ ' trajectory_analysis.py:141: SyntaxWarning: invalid escape sequence '\ ' trajectory_analysis.py:174: SyntaxWarning: invalid escape sequence '\ ' trajectory_analysis.py:233: SyntaxWarning: invalid escape sequence '\ ' cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/mol/alg/pymod/structure_analysis.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./structure_analysis.pyc\",\"structure_analysis.py\",doraise=True)" structure_analysis.py:65: SyntaxWarning: invalid escape sequence '\ ' structure_analysis.py:157: SyntaxWarning: invalid escape sequence '\ ' cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/mol/alg/pymod/helix_kinks.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./helix_kinks.pyc\",\"helix_kinks.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/mol/alg/pymod/hbond.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./hbond.pyc\",\"hbond.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/mol/alg/pymod/lddt.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./lddt.pyc\",\"lddt.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/mol/alg/pymod/qsscore.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./qsscore.pyc\",\"qsscore.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/mol/alg/pymod/scoring.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./scoring.pyc\",\"scoring.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/mol/alg/pymod/chain_mapping.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./chain_mapping.pyc\",\"chain_mapping.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/mol/alg/pymod/stereochemistry.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./stereochemistry.pyc\",\"stereochemistry.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/mol/alg/pymod/ligand_scoring.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./ligand_scoring.pyc\",\"ligand_scoring.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/mol/alg/pymod/dockq.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/mol/alg/./dockq.pyc\",\"dockq.py\",doraise=True)" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 64%] Built target _ost_mol_alg make -f modules/io/pymod/CMakeFiles/_ost_io.dir/build.make modules/io/pymod/CMakeFiles/_ost_io.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/io/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/io/pymod /<>/obj-arm-linux-gnueabihf/modules/io/pymod/CMakeFiles/_ost_io.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/io/pymod/CMakeFiles/_ost_io.dir/build.make modules/io/pymod/CMakeFiles/_ost_io.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Building CXX object modules/io/pymod/CMakeFiles/_ost_io.dir/wrap_io.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/pymod/CMakeFiles/_ost_io.dir/wrap_io.cc.o -MF CMakeFiles/_ost_io.dir/wrap_io.cc.o.d -o CMakeFiles/_ost_io.dir/wrap_io.cc.o -c /<>/modules/io/pymod/wrap_io.cc [ 65%] Generating scene_win/moc_gfx_scene_node.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_gfx_scene_node.cpp_parameters [ 65%] Generating scene_win/moc_label_node.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_label_node.cpp_parameters [ 65%] Generating scene_win/moc_render_mode_node.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_render_mode_node.cpp_parameters [ 65%] Generating scene_win/moc_render_modes_node.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_render_modes_node.cpp_parameters [ 65%] Generating scene_win/moc_root_node.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_root_node.cpp_parameters [ 65%] Generating scene_win/moc_scene_node.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_scene_node.cpp_parameters [ 65%] Generating scene_win/moc_scene_win.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_scene_win.cpp_parameters [ 65%] Generating scene_win/moc_scene_win_model.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_scene_win_model.cpp_parameters [ 65%] Linking CXX executable ../../../stage/bin/chemdict_tool cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/chemdict_tool.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro CMakeFiles/chemdict_tool.dir/chemdict_tool.cc.o -o ../../../stage/bin/chemdict_tool -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_io.so.2.5.0 ../../../stage/lib/libost_mol_alg.so.2.5.0 ../../../stage/lib/libost_conop.so.2.5.0 ../../../stage/lib/libost_db.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libsqlite3.so /usr/lib/arm-linux-gnueabihf/libboost_program_options.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_thread.so.1.83.0 ../../../stage/lib/libost_seq_alg.so.2.5.0 ../../../stage/lib/libost_seq.so.2.5.0 ../../../stage/lib/libost_mol.so.2.5.0 ../../../stage/lib/libost_img_alg.so.2.5.0 ../../../stage/lib/libost_img.so.2.5.0 ../../../stage/lib/libost_info.so.2.5.0 ../../../stage/lib/libost_base.so.2.5.0 ../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libtiff.so /usr/lib/arm-linux-gnueabihf/libpng.so /usr/lib/arm-linux-gnueabihf/libz.so make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 65%] Built target chemdict_tool [ 65%] Generating sequence_viewer/moc_align_properties_painter.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_align_properties_painter.cpp_parameters [ 66%] Generating sequence_viewer/moc_background_painter.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_background_painter.cpp_parameters [ 66%] Generating sequence_viewer/moc_alignment_view_object.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_alignment_view_object.cpp_parameters [ 66%] Generating sequence_viewer/moc_base_row.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_base_row.cpp_parameters [ 66%] Generating sequence_viewer/moc_base_view_object.cpp [ 66%] Generating sequence_viewer/moc_conservation_painter.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_conservation_painter.cpp_parameters cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_base_view_object.cpp_parameters [ 66%] Generating sequence_viewer/moc_painter.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_painter.cpp_parameters [ 66%] Generating sequence_viewer/moc_secstr_row.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_secstr_row.cpp_parameters [ 66%] Generating sequence_viewer/moc_seq_secstr_painter.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_seq_secstr_painter.cpp_parameters [ 66%] Generating sequence_viewer/moc_seq_selection_painter.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_seq_selection_painter.cpp_parameters In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/io_manager.hh:28, from /<>/modules/io/pymod/wrap_io.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/io/pymod/wrap_io.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 66%] Generating sequence_viewer/moc_seq_text_painter.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_seq_text_painter.cpp_parameters [ 66%] Generating sequence_viewer/moc_sequence_delegate.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_delegate.cpp_parameters [ 66%] Generating sequence_viewer/moc_sequence_model.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_model.cpp_parameters [ 67%] Generating sequence_viewer/moc_sequence_row.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_row.cpp_parameters [ 67%] Building CXX object modules/io/pymod/CMakeFiles/_ost_io.dir/export_pdb_io.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/pymod/CMakeFiles/_ost_io.dir/export_pdb_io.cc.o -MF CMakeFiles/_ost_io.dir/export_pdb_io.cc.o.d -o CMakeFiles/_ost_io.dir/export_pdb_io.cc.o -c /<>/modules/io/pymod/export_pdb_io.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/local_dist_diff_test.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/stereochemical_params_reader.hh:23, from /<>/modules/io/pymod/wrap_io.cc:37: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/filter_clashes.hh: In member function ‘std::pair ost::mol::alg::StereoChemicalBondViolation::GetAllowedRange() const’: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/filter_clashes.hh:91:48: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 91 | std::pair GetAllowedRange() const { return allowed_range_; } | ^ [ 67%] Generating sequence_viewer/moc_sequence_search_bar.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_search_bar.cpp_parameters [ 67%] Generating sequence_viewer/moc_sequence_table_view.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_table_view.cpp_parameters [ 67%] Generating sequence_viewer/moc_sequence_view_object.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_view_object.cpp_parameters [ 67%] Generating sequence_viewer/moc_sequence_viewer.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_viewer.cpp_parameters [ 67%] Generating sequence_viewer/moc_tick_painter.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_tick_painter.cpp_parameters [ 67%] Building CXX object modules/io/pymod/CMakeFiles/_ost_io.dir/export_mmcif_io.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/pymod/CMakeFiles/_ost_io.dir/export_mmcif_io.cc.o -MF CMakeFiles/_ost_io.dir/export_mmcif_io.cc.o.d -o CMakeFiles/_ost_io.dir/export_mmcif_io.cc.o -c /<>/modules/io/pymod/export_mmcif_io.cc [ 67%] Generating sequence_viewer/moc_title_row.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_title_row.cpp_parameters [ 67%] Generating tools/moc_measure_tool.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/tools && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_measure_tool.cpp_parameters [ 67%] Generating tools/moc_tool.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/tools && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool.cpp_parameters [ 69%] Generating tools/moc_tool_bar.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/tools && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_bar.cpp_parameters [ 69%] Generating tools/moc_tool_manager.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/tools && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_manager.cpp_parameters [ 69%] Generating tools/moc_tool_option.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/tools && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_option.cpp_parameters [ 69%] Generating tools/moc_tool_option_group.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/tools && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_option_group.cpp_parameters [ 69%] Generating tools/moc_tool_options.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/tools && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_options.cpp_parameters [ 69%] Generating tools/moc_tool_options_widget.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src/tools && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_options_widget.cpp_parameters cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/gui/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/gui/src /<>/obj-arm-linux-gnueabihf/modules/gui/src/CMakeFiles/ost_gui.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/gui/src/CMakeFiles/ost_gui.dir/build.make modules/gui/src/CMakeFiles/ost_gui.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 69%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_file_browser.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_file_browser.cpp.o -MF CMakeFiles/ost_gui.dir/moc_file_browser.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_file_browser.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_file_browser.cpp In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/io_profile.hh:24, from /<>/modules/io/pymod/export_pdb_io.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/io/pymod/export_pdb_io.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/pdb_reader.hh:28, from /<>/modules/io/pymod/export_pdb_io.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/../../../../modules/gui/src/file_browser.hh:23, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_file_browser.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_file_browser.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 69%] Building CXX object modules/io/pymod/CMakeFiles/_ost_io.dir/export_omf_io.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/pymod/CMakeFiles/_ost_io.dir/export_omf_io.cc.o -MF CMakeFiles/_ost_io.dir/export_omf_io.cc.o.d -o CMakeFiles/_ost_io.dir/export_omf_io.cc.o -c /<>/modules/io/pymod/export_omf_io.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/io_profile.hh:24, from /<>/modules/io/pymod/export_mmcif_io.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/io/pymod/export_mmcif_io.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/mmcif_reader.hh:25, from /<>/modules/io/pymod/export_mmcif_io.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 69%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_file_type_dialog.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_file_type_dialog.cpp.o -MF CMakeFiles/ost_gui.dir/moc_file_type_dialog.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_file_type_dialog.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_file_type_dialog.cpp In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/../../../../modules/gui/src/file_type_dialog.hh:31, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_file_type_dialog.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_file_type_dialog.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/omf.hh:26, from /<>/modules/io/pymod/export_omf_io.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/io/pymod/export_omf_io.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mmcif_info.hh:25, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/omf.hh:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 69%] Building CXX object modules/io/pymod/CMakeFiles/_ost_io.dir/export_map_io.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_io_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/io/pymod/CMakeFiles/_ost_io.dir/export_map_io.cc.o -MF CMakeFiles/_ost_io.dir/export_map_io.cc.o.d -o CMakeFiles/_ost_io.dir/export_map_io.cc.o -c /<>/modules/io/pymod/export_map_io.cc [ 69%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_file_viewer.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_file_viewer.cpp.o -MF CMakeFiles/ost_gui.dir/moc_file_viewer.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_file_viewer.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_file_viewer.cpp [ 69%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_gl_canvas.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_gl_canvas.cpp.o -MF CMakeFiles/ost_gui.dir/moc_gl_canvas.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_gl_canvas.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_gl_canvas.cpp In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/map.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_handler.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_df3_handler.hh:26, from /<>/modules/io/pymod/export_map_io.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/io/pymod/export_map_io.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 69%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_gl_win.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_gl_win.cpp.o -MF CMakeFiles/ost_gui.dir/moc_gl_win.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_gl_win.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_gl_win.cpp [ 69%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_scene_menu.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_scene_menu.cpp.o -MF CMakeFiles/ost_gui.dir/moc_scene_menu.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_scene_menu.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_scene_menu.cpp [ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_gosty_app.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_gosty_app.cpp.o -MF CMakeFiles/ost_gui.dir/moc_gosty_app.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_gosty_app.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_gosty_app.cpp [ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_main.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_main.cpp.o -MF CMakeFiles/ost_gui.dir/moc_main.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_main.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_main.cpp [ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_main_area.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_main_area.cpp.o -MF CMakeFiles/ost_gui.dir/moc_main_area.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_main_area.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_main_area.cpp In file included from /<>/obj-arm-linux-gnueabihf/modules/gui/src/../../../../modules/gui/src/main.hh:28, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_main.cpp:10: /<>/obj-arm-linux-gnueabihf/modules/gui/src/../../../../modules/gui/src/widget_state_saver.hh: In instantiation of ‘ost::gui::WidgetStateSaver::~WidgetStateSaver() [with BASE = QMainWindow]’: /<>/obj-arm-linux-gnueabihf/modules/gui/src/../../../../modules/gui/src/main.hh:40:25: required from here /<>/obj-arm-linux-gnueabihf/modules/gui/src/../../../../modules/gui/src/widget_state_saver.hh:323:8: warning: the address of ‘ost::gui::WidgetStateSaver::’ will never be NULL [-Waddress] 323 | if(dynamic_cast(this)){ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/obj-arm-linux-gnueabihf/modules/gui/src/../../../../modules/gui/src/widget_state_saver.hh:263:7: note: ‘ost::gui::WidgetStateSaver::’ declared here 263 | class WidgetStateSaver: public BASE | ^~~~~~~~~~~~~~~~~~~~~~ [ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_perspective.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_perspective.cpp.o -MF CMakeFiles/ost_gui.dir/moc_perspective.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_perspective.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_perspective.cpp [ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_dock_widget.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_dock_widget.cpp.o -MF CMakeFiles/ost_gui.dir/moc_dock_widget.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_dock_widget.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_dock_widget.cpp [ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_main_window.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_main_window.cpp.o -MF CMakeFiles/ost_gui.dir/moc_main_window.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_main_window.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_main_window.cpp [ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_scene_selection.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_scene_selection.cpp.o -MF CMakeFiles/ost_gui.dir/moc_scene_selection.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_scene_selection.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_scene_selection.cpp [ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_widget.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_widget.cpp.o -MF CMakeFiles/ost_gui.dir/moc_widget.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_widget.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_widget.cpp [ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_widget_geom_handler.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_widget_geom_handler.cpp.o -MF CMakeFiles/ost_gui.dir/moc_widget_geom_handler.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_widget_geom_handler.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_widget_geom_handler.cpp In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/../../../../modules/gui/src/scene_selection.hh:23, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_scene_selection.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_scene_selection.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 70%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/moc_widget_pool.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/moc_widget_pool.cpp.o -MF CMakeFiles/ost_gui.dir/moc_widget_pool.cpp.o.d -o CMakeFiles/ost_gui.dir/moc_widget_pool.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_widget_pool.cpp [ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/messages/moc_message_widget.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/messages/moc_message_widget.cpp.o -MF CMakeFiles/ost_gui.dir/messages/moc_message_widget.cpp.o.d -o CMakeFiles/ost_gui.dir/messages/moc_message_widget.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/messages/moc_message_widget.cpp [ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/messages/moc_message_box_widget.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/messages/moc_message_box_widget.cpp.o -MF CMakeFiles/ost_gui.dir/messages/moc_message_box_widget.cpp.o.d -o CMakeFiles/ost_gui.dir/messages/moc_message_box_widget.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/messages/moc_message_box_widget.cpp [ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/messages/moc_log_reader.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/messages/moc_log_reader.cpp.o -MF CMakeFiles/ost_gui.dir/messages/moc_log_reader.cpp.o.d -o CMakeFiles/ost_gui.dir/messages/moc_log_reader.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/messages/moc_log_reader.cpp [ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_align_properties_painter.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_align_properties_painter.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_align_properties_painter.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_align_properties_painter.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_align_properties_painter.cpp [ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_background_painter.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_background_painter.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_background_painter.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_background_painter.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_background_painter.cpp [ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_base_row.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_base_row.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_base_row.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_base_row.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_base_row.cpp In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/painter.hh:27, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/align_properties_painter.hh:27, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_align_properties_painter.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_align_properties_painter.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/painter.hh:27, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/background_painter.hh:27, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_background_painter.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_background_painter.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_conservation_painter.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_conservation_painter.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_conservation_painter.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_conservation_painter.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_conservation_painter.cpp In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/painter.hh:27, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/base_row.hh:27, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_base_row.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_base_row.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_painter.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_painter.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_painter.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_painter.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_painter.cpp [ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_secstr_row.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_secstr_row.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_secstr_row.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_secstr_row.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_secstr_row.cpp In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/painter.hh:27, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/conservation_painter.hh:27, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_conservation_painter.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_conservation_painter.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/painter.hh:27, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_painter.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_painter.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/chain_view.hh:23, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/secstr_row.hh:27, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_secstr_row.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_secstr_row.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_secstr_painter.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_secstr_painter.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_secstr_painter.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_secstr_painter.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_seq_secstr_painter.cpp [ 71%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_selection_painter.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_selection_painter.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_selection_painter.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_selection_painter.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_seq_selection_painter.cpp [ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_text_painter.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_text_painter.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_text_painter.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_seq_text_painter.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_seq_text_painter.cpp In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/painter.hh:27, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/seq_secstr_painter.hh:27, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_seq_secstr_painter.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_seq_secstr_painter.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/painter.hh:27, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/seq_selection_painter.hh:27, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_seq_selection_painter.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_seq_selection_painter.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_delegate.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_delegate.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_delegate.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_delegate.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_delegate.cpp In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/painter.hh:27, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/seq_text_painter.hh:27, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_seq_text_painter.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_seq_text_painter.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_model.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_model.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_model.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_model.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_model.cpp [ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_row.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_row.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_row.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_row.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_row.cpp In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/chain_view.hh:23, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/sequence_model.hh:28, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/sequence_delegate.hh:28, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_delegate.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_delegate.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/sequence_model.hh:30: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/chain_view.hh:23, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/sequence_model.hh:28, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_model.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_model.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/sequence_model.hh:30: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/sequence_row.hh:27, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_row.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_row.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_search_bar.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_search_bar.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_search_bar.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_search_bar.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_search_bar.cpp [ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_table_view.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_table_view.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_table_view.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_table_view.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_table_view.cpp [ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_viewer.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_viewer.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_viewer.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_viewer.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_viewer.cpp In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/sequence_search_bar.hh:26, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_search_bar.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_search_bar.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/chain_view.hh:23, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/sequence_model.hh:28, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/sequence_delegate.hh:28, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/sequence_table_view.hh:29, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_table_view.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_table_view.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/sequence_model.hh:30: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/sequence_viewer.hh:28, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_viewer.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_viewer.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_tick_painter.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_tick_painter.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_tick_painter.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_tick_painter.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_tick_painter.cpp [ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_title_row.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_title_row.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_title_row.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_title_row.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_title_row.cpp In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/painter.hh:27, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/tick_painter.hh:27, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_tick_painter.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_tick_painter.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 73%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_alignment_view_object.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_alignment_view_object.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_alignment_view_object.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_alignment_view_object.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_alignment_view_object.cpp In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/painter.hh:27, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/base_row.hh:27, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/title_row.hh:27, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_title_row.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_title_row.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_base_view_object.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_base_view_object.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_base_view_object.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_base_view_object.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_base_view_object.cpp In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/alignment_view_object.hh:28, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_alignment_view_object.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_alignment_view_object.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_view_object.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_view_object.cpp.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_view_object.cpp.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/moc_sequence_view_object.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_view_object.cpp In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/painter.hh:27, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/base_row.hh:27, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/base_view_object.hh:27, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_base_view_object.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_base_view_object.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_main_thread_runner.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_main_thread_runner.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_main_thread_runner.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_main_thread_runner.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_main_thread_runner.cpp [ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_completer_base.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_completer_base.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_completer_base.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_completer_base.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_completer_base.cpp In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/sequence_view_object.hh:28, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_view_object.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/moc_sequence_view_object.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 74%] Linking CXX shared module ../../../stage/lib/python3.12/dist-packages/ost/io/_ost_io.so cd /<>/obj-arm-linux-gnueabihf/modules/io/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_io.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro -shared -o ../../../stage/lib/python3.12/dist-packages/ost/io/_ost_io.so CMakeFiles/_ost_io.dir/wrap_io.cc.o CMakeFiles/_ost_io.dir/export_pdb_io.cc.o CMakeFiles/_ost_io.dir/export_mmcif_io.cc.o CMakeFiles/_ost_io.dir/export_omf_io.cc.o CMakeFiles/_ost_io.dir/export_map_io.cc.o -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_io.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so.1.83.0 ../../../stage/lib/libost_mol_alg.so.2.5.0 ../../../stage/lib/libost_conop.so.2.5.0 ../../../stage/lib/libost_db.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libsqlite3.so /usr/lib/arm-linux-gnueabihf/libboost_program_options.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_thread.so.1.83.0 ../../../stage/lib/libost_seq_alg.so.2.5.0 ../../../stage/lib/libost_seq.so.2.5.0 ../../../stage/lib/libost_mol.so.2.5.0 ../../../stage/lib/libost_img_alg.so.2.5.0 ../../../stage/lib/libost_img.so.2.5.0 ../../../stage/lib/libost_info.so.2.5.0 ../../../stage/lib/libost_base.so.2.5.0 ../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libtiff.so /usr/lib/arm-linux-gnueabihf/libpng.so /usr/lib/arm-linux-gnueabihf/libz.so In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_renderer.hh:38, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:41, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/sequence_view_object.hh:30: /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_node.hh:55:16: warning: ‘virtual void ost::gfx::GfxNode::DeepSwap(ost::gfx::GfxNode&)’ was hidden [-Woverloaded-virtual=] 55 | virtual void DeepSwap(GfxNode& n); | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:58:16: note: by ‘virtual void ost::gfx::GfxObj::DeepSwap(ost::gfx::GfxObj&)’ 58 | virtual void DeepSwap(GfxObj& go); | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/sequence_viewer/../../../../../modules/gui/src/sequence_viewer/sequence_view_object.hh:32: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ cd /<>/obj-arm-linux-gnueabihf/modules/io/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/io/pymod/__init__.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/io/./__init__.pyc\",\"__init__.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/io/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/io/pymod/remote.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/io/./remote.pyc\",\"remote.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/io/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/io/pymod/repository.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/io/./repository.pyc\",\"repository.py\",doraise=True)" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 74%] Built target _ost_io [ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_gutter.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_gutter.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_gutter.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_gutter.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_gutter.cpp [ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_output_redirector.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_output_redirector.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_output_redirector.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_output_redirector.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_output_redirector.cpp [ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_path_completer.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_path_completer.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_path_completer.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_path_completer.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_path_completer.cpp [ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_python_completer.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_python_completer.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_python_completer.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_python_completer.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_python_completer.cpp [ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_python_interpreter.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_python_interpreter.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_python_interpreter.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_python_interpreter.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_python_interpreter.cpp [ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_python_interpreter_worker.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_python_interpreter_worker.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_python_interpreter_worker.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_python_interpreter_worker.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_python_interpreter_worker.cpp [ 74%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_python_namespace_tree_model.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_python_namespace_tree_model.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_python_namespace_tree_model.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_python_namespace_tree_model.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_python_namespace_tree_model.cpp [ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_python_shell.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_python_shell.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_python_shell.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_python_shell.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_python_shell.cpp [ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_python_shell_widget.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_python_shell_widget.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_python_shell_widget.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_python_shell_widget.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_python_shell_widget.cpp [ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_text_logger.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_text_logger.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_text_logger.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_text_logger.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_text_logger.cpp [ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_state_machine.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_state_machine.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_state_machine.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_state_machine.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_state_machine.cpp [ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_state.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_state.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_state.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_state.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_state.cpp [ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_transition.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_transition.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_transition.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_transition.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_transition.cpp [ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_transition_guard.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/moc_transition_guard.cpp.o -MF CMakeFiles/ost_gui.dir/python_shell/moc_transition_guard.cpp.o.d -o CMakeFiles/ost_gui.dir/python_shell/moc_transition_guard.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/python_shell/moc_transition_guard.cpp [ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_button_bar.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_button_bar.cpp.o -MF CMakeFiles/ost_gui.dir/panels/moc_button_bar.cpp.o.d -o CMakeFiles/ost_gui.dir/panels/moc_button_bar.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_button_bar.cpp [ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_drop_box.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_drop_box.cpp.o -MF CMakeFiles/ost_gui.dir/panels/moc_drop_box.cpp.o.d -o CMakeFiles/ost_gui.dir/panels/moc_drop_box.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_drop_box.cpp In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/panels/../../../../../modules/gui/src/panels/drop_box.hh:22, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_drop_box.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_drop_box.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 75%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_panel_bar.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_panel_bar.cpp.o -MF CMakeFiles/ost_gui.dir/panels/moc_panel_bar.cpp.o.d -o CMakeFiles/ost_gui.dir/panels/moc_panel_bar.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_panel_bar.cpp [ 76%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_panel_manager.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_panel_manager.cpp.o -MF CMakeFiles/ost_gui.dir/panels/moc_panel_manager.cpp.o.d -o CMakeFiles/ost_gui.dir/panels/moc_panel_manager.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_panel_manager.cpp [ 76%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_bottom_bar.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_bottom_bar.cpp.o -MF CMakeFiles/ost_gui.dir/panels/moc_bottom_bar.cpp.o.d -o CMakeFiles/ost_gui.dir/panels/moc_bottom_bar.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_bottom_bar.cpp [ 76%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_button_box.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_button_box.cpp.o -MF CMakeFiles/ost_gui.dir/panels/moc_button_box.cpp.o.d -o CMakeFiles/ost_gui.dir/panels/moc_button_box.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_button_box.cpp [ 76%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_event_button.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_event_button.cpp.o -MF CMakeFiles/ost_gui.dir/panels/moc_event_button.cpp.o.d -o CMakeFiles/ost_gui.dir/panels/moc_event_button.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_event_button.cpp [ 76%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_panel_widget_container.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_panel_widget_container.cpp.o -MF CMakeFiles/ost_gui.dir/panels/moc_panel_widget_container.cpp.o.d -o CMakeFiles/ost_gui.dir/panels/moc_panel_widget_container.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_panel_widget_container.cpp [ 76%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_panel_bar_widget_holder.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_panel_bar_widget_holder.cpp.o -MF CMakeFiles/ost_gui.dir/panels/moc_panel_bar_widget_holder.cpp.o.d -o CMakeFiles/ost_gui.dir/panels/moc_panel_bar_widget_holder.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_panel_bar_widget_holder.cpp [ 76%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_side_bar.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_side_bar.cpp.o -MF CMakeFiles/ost_gui.dir/panels/moc_side_bar.cpp.o.d -o CMakeFiles/ost_gui.dir/panels/moc_side_bar.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_side_bar.cpp [ 76%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_splitter_panel_bar.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_splitter_panel_bar.cpp.o -MF CMakeFiles/ost_gui.dir/panels/moc_splitter_panel_bar.cpp.o.d -o CMakeFiles/ost_gui.dir/panels/moc_splitter_panel_bar.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_splitter_panel_bar.cpp [ 76%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_tabbed_panel_bar.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/moc_tabbed_panel_bar.cpp.o -MF CMakeFiles/ost_gui.dir/panels/moc_tabbed_panel_bar.cpp.o.d -o CMakeFiles/ost_gui.dir/panels/moc_tabbed_panel_bar.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/panels/moc_tabbed_panel_bar.cpp [ 76%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_context_menu.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_context_menu.cpp.o -MF CMakeFiles/ost_gui.dir/scene_win/moc_context_menu.cpp.o.d -o CMakeFiles/ost_gui.dir/scene_win/moc_context_menu.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_context_menu.cpp [ 76%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_current_selection_node.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_current_selection_node.cpp.o -MF CMakeFiles/ost_gui.dir/scene_win/moc_current_selection_node.cpp.o.d -o CMakeFiles/ost_gui.dir/scene_win/moc_current_selection_node.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_current_selection_node.cpp [ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_custom_part_node.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_custom_part_node.cpp.o -MF CMakeFiles/ost_gui.dir/scene_win/moc_custom_part_node.cpp.o.d -o CMakeFiles/ost_gui.dir/scene_win/moc_custom_part_node.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_custom_part_node.cpp In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/scene_win_model.hh:28, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/../../../../../modules/gui/src/scene_win/context_menu.hh:28, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_context_menu.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_context_menu.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_gfx_scene_node.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_gfx_scene_node.cpp.o -MF CMakeFiles/ost_gui.dir/scene_win/moc_gfx_scene_node.cpp.o.d -o CMakeFiles/ost_gui.dir/scene_win/moc_gfx_scene_node.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_gfx_scene_node.cpp In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/../../../../../modules/gui/src/scene_win/current_selection_node.hh:23, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_current_selection_node.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_current_selection_node.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/../../../../../modules/gui/src/scene_win/custom_part_node.hh:23, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_custom_part_node.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_custom_part_node.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_label_node.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_label_node.cpp.o -MF CMakeFiles/ost_gui.dir/scene_win/moc_label_node.cpp.o.d -o CMakeFiles/ost_gui.dir/scene_win/moc_label_node.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_label_node.cpp [ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_entity_node.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_entity_node.cpp.o -MF CMakeFiles/ost_gui.dir/scene_win/moc_entity_node.cpp.o.d -o CMakeFiles/ost_gui.dir/scene_win/moc_entity_node.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_entity_node.cpp [ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_entity_part_node.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_entity_part_node.cpp.o -MF CMakeFiles/ost_gui.dir/scene_win/moc_entity_part_node.cpp.o.d -o CMakeFiles/ost_gui.dir/scene_win/moc_entity_part_node.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_entity_part_node.cpp [ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_render_mode_node.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_render_mode_node.cpp.o -MF CMakeFiles/ost_gui.dir/scene_win/moc_render_mode_node.cpp.o.d -o CMakeFiles/ost_gui.dir/scene_win/moc_render_mode_node.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_render_mode_node.cpp [ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_render_modes_node.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_render_modes_node.cpp.o -MF CMakeFiles/ost_gui.dir/scene_win/moc_render_modes_node.cpp.o.d -o CMakeFiles/ost_gui.dir/scene_win/moc_render_modes_node.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_render_modes_node.cpp In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:29, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/../../../../../modules/gui/src/scene_win/entity_node.hh:28, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_entity_node.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_entity_node.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/../../../../../modules/gui/src/scene_win/entity_part_node.hh:23, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_entity_part_node.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_entity_part_node.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/../../../../../modules/gui/src/scene_win/render_mode_node.hh:23, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_render_mode_node.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_render_mode_node.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_renderer.hh:38, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:41: /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:62:16: warning: ‘virtual void ost::gfx::GfxObj::Apply(ost::gfx::GfxNodeVisitor&, ost::gfx::GfxNodeVisitor::Stack)’ was hidden [-Woverloaded-virtual=] 62 | virtual void Apply(GfxNodeVisitor& v, GfxNodeVisitor::Stack st); | ^~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:294:8: note: by ‘ost::gfx::Entity::Apply’ 294 | void Apply(const gfx::MapHandleColorOp& op, bool store=true); | ^~~~~ [ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_root_node.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_root_node.cpp.o -MF CMakeFiles/ost_gui.dir/scene_win/moc_root_node.cpp.o.d -o CMakeFiles/ost_gui.dir/scene_win/moc_root_node.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_root_node.cpp [ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_scene_node.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_scene_node.cpp.o -MF CMakeFiles/ost_gui.dir/scene_win/moc_scene_node.cpp.o.d -o CMakeFiles/ost_gui.dir/scene_win/moc_scene_node.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_scene_node.cpp [ 78%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_scene_win.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_scene_win.cpp.o -MF CMakeFiles/ost_gui.dir/scene_win/moc_scene_win.cpp.o.d -o CMakeFiles/ost_gui.dir/scene_win/moc_scene_win.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_scene_win.cpp In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/../../../../../modules/gui/src/scene_win/render_mode_node.hh:23, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/../../../../../modules/gui/src/scene_win/render_modes_node.hh:28, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_render_modes_node.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_render_modes_node.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_scene_win_model.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/moc_scene_win_model.cpp.o -MF CMakeFiles/ost_gui.dir/scene_win/moc_scene_win_model.cpp.o.d -o CMakeFiles/ost_gui.dir/scene_win/moc_scene_win_model.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_scene_win_model.cpp [ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool.cpp.o -MF CMakeFiles/ost_gui.dir/tools/moc_tool.cpp.o.d -o CMakeFiles/ost_gui.dir/tools/moc_tool.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool.cpp [ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_option_group.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_option_group.cpp.o -MF CMakeFiles/ost_gui.dir/tools/moc_tool_option_group.cpp.o.d -o CMakeFiles/ost_gui.dir/tools/moc_tool_option_group.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_option_group.cpp In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/../../../../../modules/gui/src/scene_win/scene_win.hh:23, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_scene_win.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_scene_win.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/../../../../../modules/gui/src/scene_win/scene_win_model.hh:28, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_scene_win_model.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/scene_win/moc_scene_win_model.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_options.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_options.cpp.o -MF CMakeFiles/ost_gui.dir/tools/moc_tool_options.cpp.o.d -o CMakeFiles/ost_gui.dir/tools/moc_tool_options.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_options.cpp [ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_bar.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_bar.cpp.o -MF CMakeFiles/ost_gui.dir/tools/moc_tool_bar.cpp.o.d -o CMakeFiles/ost_gui.dir/tools/moc_tool_bar.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_bar.cpp [ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_option.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_option.cpp.o -MF CMakeFiles/ost_gui.dir/tools/moc_tool_option.cpp.o.d -o CMakeFiles/ost_gui.dir/tools/moc_tool_option.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_option.cpp [ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_manager.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_manager.cpp.o -MF CMakeFiles/ost_gui.dir/tools/moc_tool_manager.cpp.o.d -o CMakeFiles/ost_gui.dir/tools/moc_tool_manager.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_manager.cpp [ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_options_widget.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_options_widget.cpp.o -MF CMakeFiles/ost_gui.dir/tools/moc_tool_options_widget.cpp.o.d -o CMakeFiles/ost_gui.dir/tools/moc_tool_options_widget.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_options_widget.cpp [ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_measure_tool.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_measure_tool.cpp.o -MF CMakeFiles/ost_gui.dir/tools/moc_measure_tool.cpp.o.d -o CMakeFiles/ost_gui.dir/tools/moc_measure_tool.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_measure_tool.cpp [ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_options_win.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/moc_tool_options_win.cpp.o -MF CMakeFiles/ost_gui.dir/tools/moc_tool_options_win.cpp.o.d -o CMakeFiles/ost_gui.dir/tools/moc_tool_options_win.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_tool_options_win.cpp [ 79%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_argand.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_argand.cpp.o -MF CMakeFiles/ost_gui.dir/data_viewer/moc_argand.cpp.o.d -o CMakeFiles/ost_gui.dir/data_viewer/moc_argand.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_argand.cpp [ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_fft_panel.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_fft_panel.cpp.o -MF CMakeFiles/ost_gui.dir/data_viewer/moc_fft_panel.cpp.o.d -o CMakeFiles/ost_gui.dir/data_viewer/moc_fft_panel.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_fft_panel.cpp In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/../../../../../modules/gui/src/data_viewer/argand.hh:30, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_argand.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_argand.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/tools/../../../../../modules/gui/src/tools/measure_tool.hh:28, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_measure_tool.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/tools/moc_measure_tool.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_handle.hh:38, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data_observer.hh:31, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/../../../../../modules/gui/src/data_viewer/fft_panel.hh:30, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_fft_panel.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_fft_panel.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_info_panel.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_info_panel.cpp.o -MF CMakeFiles/ost_gui.dir/data_viewer/moc_info_panel.cpp.o.d -o CMakeFiles/ost_gui.dir/data_viewer/moc_info_panel.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_info_panel.cpp [ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_data_viewer.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_data_viewer.cpp.o -MF CMakeFiles/ost_gui.dir/data_viewer/moc_data_viewer.cpp.o.d -o CMakeFiles/ost_gui.dir/data_viewer/moc_data_viewer.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_data_viewer.cpp [ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_overlay_manager_gui.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_overlay_manager_gui.cpp.o -MF CMakeFiles/ost_gui.dir/data_viewer/moc_overlay_manager_gui.cpp.o.d -o CMakeFiles/ost_gui.dir/data_viewer/moc_overlay_manager_gui.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_overlay_manager_gui.cpp In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/../../../../../modules/gui/src/data_viewer/info_panel.hh:30, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_info_panel.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_info_panel.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_data_viewer_panel_base.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_data_viewer_panel_base.cpp.o -MF CMakeFiles/ost_gui.dir/data_viewer/moc_data_viewer_panel_base.cpp.o.d -o CMakeFiles/ost_gui.dir/data_viewer/moc_data_viewer_panel_base.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_data_viewer_panel_base.cpp In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/../../../../../modules/gui/src/data_viewer/data_viewer.hh:33, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_data_viewer.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_data_viewer.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_null_overlay.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_null_overlay.cpp.o -MF CMakeFiles/ost_gui.dir/data_viewer/moc_null_overlay.cpp.o.d -o CMakeFiles/ost_gui.dir/data_viewer/moc_null_overlay.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_null_overlay.cpp [ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_overlay_base.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_overlay_base.cpp.o -MF CMakeFiles/ost_gui.dir/data_viewer/moc_overlay_base.cpp.o.d -o CMakeFiles/ost_gui.dir/data_viewer/moc_overlay_base.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_overlay_base.cpp In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/../../../../../modules/gui/src/data_viewer/data_viewer_panel_base.hh:34, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_data_viewer_panel_base.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_data_viewer_panel_base.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_pointlist_overlay_base.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/moc_pointlist_overlay_base.cpp.o -MF CMakeFiles/ost_gui.dir/data_viewer/moc_pointlist_overlay_base.cpp.o.d -o CMakeFiles/ost_gui.dir/data_viewer/moc_pointlist_overlay_base.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_pointlist_overlay_base.cpp [ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/thin_splitter.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/thin_splitter.cc.o -MF CMakeFiles/ost_gui.dir/thin_splitter.cc.o.d -o CMakeFiles/ost_gui.dir/thin_splitter.cc.o -c /<>/modules/gui/src/thin_splitter.cc [ 80%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/perspective.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/perspective.cc.o -MF CMakeFiles/ost_gui.dir/perspective.cc.o.d -o CMakeFiles/ost_gui.dir/perspective.cc.o -c /<>/modules/gui/src/perspective.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/../../../../../modules/gui/src/data_viewer/pointlist_overlay_base.hh:31, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_pointlist_overlay_base.cpp:10: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /<>/obj-arm-linux-gnueabihf/modules/gui/src/data_viewer/moc_pointlist_overlay_base.cpp:9: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/widget_registry.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/widget_registry.cc.o -MF CMakeFiles/ost_gui.dir/widget_registry.cc.o.d -o CMakeFiles/ost_gui.dir/widget_registry.cc.o -c /<>/modules/gui/src/widget_registry.cc [ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/file_browser.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/file_browser.cc.o -MF CMakeFiles/ost_gui.dir/file_browser.cc.o.d -o CMakeFiles/ost_gui.dir/file_browser.cc.o -c /<>/modules/gui/src/file_browser.cc [ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/file_type_dialog.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/file_type_dialog.cc.o -MF CMakeFiles/ost_gui.dir/file_type_dialog.cc.o.d -o CMakeFiles/ost_gui.dir/file_type_dialog.cc.o -c /<>/modules/gui/src/file_type_dialog.cc [ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/file_viewer.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/file_viewer.cc.o -MF CMakeFiles/ost_gui.dir/file_viewer.cc.o.d -o CMakeFiles/ost_gui.dir/file_viewer.cc.o -c /<>/modules/gui/src/file_viewer.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/file_browser.hh:23, from /<>/modules/gui/src/perspective.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/platform.hh:22, from /<>/modules/gui/src/perspective.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /<>/modules/gui/src/file_type_dialog.hh:31, from /<>/modules/gui/src/file_type_dialog.cc:19: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/module_config.hh:26, from /<>/modules/gui/src/file_type_dialog.hh:26: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/main.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/main.cc.o -MF CMakeFiles/ost_gui.dir/main.cc.o.d -o CMakeFiles/ost_gui.dir/main.cc.o -c /<>/modules/gui/src/main.cc [ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/gl_canvas.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/gl_canvas.cc.o -MF CMakeFiles/ost_gui.dir/gl_canvas.cc.o.d -o CMakeFiles/ost_gui.dir/gl_canvas.cc.o -c /<>/modules/gui/src/gl_canvas.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/gui/src/file_browser.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /<>/modules/gui/src/file_browser.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/file_loader.hh:30, from /<>/modules/gui/src/file_browser.cc:34: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/dock_widget.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/dock_widget.cc.o -MF CMakeFiles/ost_gui.dir/dock_widget.cc.o.d -o CMakeFiles/ost_gui.dir/dock_widget.cc.o -c /<>/modules/gui/src/dock_widget.cc /<>/modules/gui/src/file_browser.cc: In constructor ‘ost::gui::FileBrowser::FileBrowser(QWidget*)’: /<>/modules/gui/src/file_browser.cc:62:13: warning: ‘QDirModel::QDirModel(QObject*)’ is deprecated: Use QFileSystemModel [-Wdeprecated-declarations] 62 | model_(new QDirModel), | ^~~~~~~~~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/QDirModel:1, from /<>/modules/gui/src/file_browser.cc:53: /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/qdirmodel.h:73:67: note: declared here 73 | QT_DEPRECATED_VERSION_X_5_15("Use QFileSystemModel") explicit QDirModel(QObject *parent = nullptr); | ^~~~~~~~~ /<>/modules/gui/src/file_browser.cc: In constructor ‘ost::gui::FileBrowser::FileBrowser(const QString&, QWidget*)’: /<>/modules/gui/src/file_browser.cc:102:13: warning: ‘QDirModel::QDirModel(QObject*)’ is deprecated: Use QFileSystemModel [-Wdeprecated-declarations] 102 | model_(new QDirModel), | ^~~~~~~~~ /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/qdirmodel.h:73:67: note: declared here 73 | QT_DEPRECATED_VERSION_X_5_15("Use QFileSystemModel") explicit QDirModel(QObject *parent = nullptr); | ^~~~~~~~~ [ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/main_window.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/main_window.cc.o -MF CMakeFiles/ost_gui.dir/main_window.cc.o.d -o CMakeFiles/ost_gui.dir/main_window.cc.o -c /<>/modules/gui/src/main_window.cc [ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/gl_win.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/gl_win.cc.o -MF CMakeFiles/ost_gui.dir/gl_win.cc.o.d -o CMakeFiles/ost_gui.dir/gl_win.cc.o -c /<>/modules/gui/src/gl_win.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/file_loader.hh:24, from /<>/modules/gui/src/main.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /<>/modules/gui/src/main.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/file_loader.hh:30: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:37, from /<>/modules/gui/src/gl_canvas.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/glwin_base.hh:28, from /<>/modules/gui/src/gl_canvas.hh:22, from /<>/modules/gui/src/gl_canvas.cc:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:28: /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/widget_state_saver.hh: In instantiation of ‘ost::gui::WidgetStateSaver::~WidgetStateSaver() [with BASE = QMainWindow]’: /<>/modules/gui/src/main.cc:70:69: required from here /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/widget_state_saver.hh:323:8: warning: the address of ‘ost::gui::WidgetStateSaver::’ will never be NULL [-Waddress] 323 | if(dynamic_cast(this)){ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/widget_state_saver.hh:263:7: note: ‘ost::gui::WidgetStateSaver::’ declared here 263 | class WidgetStateSaver: public BASE | ^~~~~~~~~~~~~~~~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/widget_state_saver.hh: In instantiation of ‘void ost::gui::WidgetStateSaver::set_state_() [with BASE = QMainWindow]’: /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/widget_state_saver.hh:286:5: required from ‘ost::gui::WidgetStateSaver::WidgetStateSaver(const QString&, QPoint, QSize, QWidget*) [with BASE = QMainWindow]’ /<>/modules/gui/src/main.cc:70:69: required from here /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/widget_state_saver.hh:305:10: warning: the address of ‘ost::gui::WidgetStateSaver::’ will never be NULL [-Waddress] 305 | if(dynamic_cast(this)){ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/widget_state_saver.hh:263:7: note: ‘ost::gui::WidgetStateSaver::’ declared here 263 | class WidgetStateSaver: public BASE | ^~~~~~~~~~~~~~~~~~~~~~ [ 82%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_menu.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_menu.cc.o -MF CMakeFiles/ost_gui.dir/scene_menu.cc.o.d -o CMakeFiles/ost_gui.dir/scene_menu.cc.o -c /<>/modules/gui/src/scene_menu.cc [ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/widget.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/widget.cc.o -MF CMakeFiles/ost_gui.dir/widget.cc.o.d -o CMakeFiles/ost_gui.dir/widget.cc.o -c /<>/modules/gui/src/widget.cc [ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/admin.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/admin.cc.o -MF CMakeFiles/ost_gui.dir/admin.cc.o.d -o CMakeFiles/ost_gui.dir/admin.cc.o -c /<>/modules/gui/src/admin.cc [ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/widget_pool.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/widget_pool.cc.o -MF CMakeFiles/ost_gui.dir/widget_pool.cc.o.d -o CMakeFiles/ost_gui.dir/widget_pool.cc.o -c /<>/modules/gui/src/widget_pool.cc [ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/messages/message_widget.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/messages/message_widget.cc.o -MF CMakeFiles/ost_gui.dir/messages/message_widget.cc.o.d -o CMakeFiles/ost_gui.dir/messages/message_widget.cc.o -c /<>/modules/gui/src/messages/message_widget.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:37, from /<>/modules/gui/src/gl_win.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /<>/modules/gui/src/gl_win.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/messages/message_box_widget.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/messages/message_box_widget.cc.o -MF CMakeFiles/ost_gui.dir/messages/message_box_widget.cc.o.d -o CMakeFiles/ost_gui.dir/messages/message_box_widget.cc.o -c /<>/modules/gui/src/messages/message_box_widget.cc [ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/messages/log_reader.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/messages/log_reader.cc.o -MF CMakeFiles/ost_gui.dir/messages/log_reader.cc.o.d -o CMakeFiles/ost_gui.dir/messages/log_reader.cc.o -c /<>/modules/gui/src/messages/log_reader.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/view_op.hh:29, from /<>/modules/gui/src/scene_menu.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /<>/modules/gui/src/scene_menu.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/align_properties_painter.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/align_properties_painter.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/align_properties_painter.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/align_properties_painter.cc.o -c /<>/modules/gui/src/sequence_viewer/align_properties_painter.cc [ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/base_row.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/base_row.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/base_row.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/base_row.cc.o -c /<>/modules/gui/src/sequence_viewer/base_row.cc [ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/background_painter.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/background_painter.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/background_painter.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/background_painter.cc.o -c /<>/modules/gui/src/sequence_viewer/background_painter.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /<>/modules/gui/src/sequence_viewer/painter.hh:27, from /<>/modules/gui/src/sequence_viewer/align_properties_painter.hh:27, from /<>/modules/gui/src/sequence_viewer/align_properties_painter.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /<>/modules/gui/src/sequence_viewer/painter.hh:27, from /<>/modules/gui/src/sequence_viewer/base_row.hh:27, from /<>/modules/gui/src/sequence_viewer/base_row.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/conservation_painter.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/conservation_painter.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/conservation_painter.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/conservation_painter.cc.o -c /<>/modules/gui/src/sequence_viewer/conservation_painter.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /<>/modules/gui/src/sequence_viewer/painter.hh:27, from /<>/modules/gui/src/sequence_viewer/background_painter.hh:27, from /<>/modules/gui/src/sequence_viewer/background_painter.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /<>/modules/gui/src/sequence_viewer/painter.hh:27, from /<>/modules/gui/src/sequence_viewer/conservation_painter.hh:27, from /<>/modules/gui/src/sequence_viewer/conservation_painter.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 83%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/secstr_row.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/secstr_row.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/secstr_row.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/secstr_row.cc.o -c /<>/modules/gui/src/sequence_viewer/secstr_row.cc [ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/seq_secstr_painter.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/seq_secstr_painter.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/seq_secstr_painter.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/seq_secstr_painter.cc.o -c /<>/modules/gui/src/sequence_viewer/seq_secstr_painter.cc [ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/seq_selection_painter.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/seq_selection_painter.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/seq_selection_painter.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/seq_selection_painter.cc.o -c /<>/modules/gui/src/sequence_viewer/seq_selection_painter.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /<>/modules/gui/src/sequence_viewer/painter.hh:27, from /<>/modules/gui/src/sequence_viewer/seq_secstr_painter.hh:27, from /<>/modules/gui/src/sequence_viewer/seq_secstr_painter.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/seq_text_painter.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/seq_text_painter.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/seq_text_painter.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/seq_text_painter.cc.o -c /<>/modules/gui/src/sequence_viewer/seq_text_painter.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/gui/src/sequence_viewer/secstr_row.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_renderer.hh:38, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:41, from /<>/modules/gui/src/sequence_viewer/secstr_row.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_node.hh:55:16: warning: ‘virtual void ost::gfx::GfxNode::DeepSwap(ost::gfx::GfxNode&)’ was hidden [-Woverloaded-virtual=] 55 | virtual void DeepSwap(GfxNode& n); | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:58:16: note: by ‘virtual void ost::gfx::GfxObj::DeepSwap(ost::gfx::GfxObj&)’ 58 | virtual void DeepSwap(GfxObj& go); | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /<>/modules/gui/src/sequence_viewer/painter.hh:27, from /<>/modules/gui/src/sequence_viewer/seq_selection_painter.hh:27, from /<>/modules/gui/src/sequence_viewer/seq_selection_painter.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /<>/modules/gui/src/sequence_viewer/painter.hh:27, from /<>/modules/gui/src/sequence_viewer/seq_text_painter.hh:27, from /<>/modules/gui/src/sequence_viewer/seq_text_painter.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_delegate.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_delegate.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/sequence_delegate.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/sequence_delegate.cc.o -c /<>/modules/gui/src/sequence_viewer/sequence_delegate.cc [ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_model.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_model.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/sequence_model.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/sequence_model.cc.o -c /<>/modules/gui/src/sequence_viewer/sequence_model.cc [ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_row.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_row.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/sequence_row.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/sequence_row.cc.o -c /<>/modules/gui/src/sequence_viewer/sequence_row.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/chain_view.hh:23, from /<>/modules/gui/src/sequence_viewer/sequence_model.hh:28, from /<>/modules/gui/src/sequence_viewer/sequence_delegate.hh:28, from /<>/modules/gui/src/sequence_viewer/sequence_delegate.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/chain_view.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_search_bar.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_search_bar.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/sequence_search_bar.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/sequence_search_bar.cc.o -c /<>/modules/gui/src/sequence_viewer/sequence_search_bar.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/modules/gui/src/sequence_viewer/sequence_model.hh:30: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /<>/modules/gui/src/sequence_viewer/painter.hh:27, from /<>/modules/gui/src/sequence_viewer/base_row.hh:27, from /<>/modules/gui/src/sequence_viewer/title_row.hh:27, from /<>/modules/gui/src/sequence_viewer/sequence_model.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/gui/src/sequence_viewer/sequence_row.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/modules/gui/src/sequence_viewer/sequence_model.hh:30, from /<>/modules/gui/src/sequence_viewer/sequence_model.cc:30: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_renderer.hh:38, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:41, from /<>/modules/gui/src/sequence_viewer/sequence_row.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_node.hh:55:16: warning: ‘virtual void ost::gfx::GfxNode::DeepSwap(ost::gfx::GfxNode&)’ was hidden [-Woverloaded-virtual=] 55 | virtual void DeepSwap(GfxNode& n); | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:58:16: note: by ‘virtual void ost::gfx::GfxObj::DeepSwap(ost::gfx::GfxObj&)’ 58 | virtual void DeepSwap(GfxObj& go); | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /<>/modules/gui/src/sequence_viewer/sequence_search_bar.hh:26, from /<>/modules/gui/src/sequence_viewer/sequence_search_bar.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/module_config.hh:26, from /<>/modules/gui/src/sequence_viewer/sequence_search_bar.hh:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/modules/gui/src/sequence_viewer/sequence_view_object.hh:32, from /<>/modules/gui/src/sequence_viewer/sequence_row.cc:31: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_renderer.hh:38, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:41, from /<>/modules/gui/src/sequence_viewer/sequence_model.hh:33: /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_node.hh:55:16: warning: ‘virtual void ost::gfx::GfxNode::DeepSwap(ost::gfx::GfxNode&)’ was hidden [-Woverloaded-virtual=] 55 | virtual void DeepSwap(GfxNode& n); | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:58:16: note: by ‘virtual void ost::gfx::GfxObj::DeepSwap(ost::gfx::GfxObj&)’ 58 | virtual void DeepSwap(GfxObj& go); | ^~~~~~~~ [ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_table_view.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_table_view.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/sequence_table_view.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/sequence_table_view.cc.o -c /<>/modules/gui/src/sequence_viewer/sequence_table_view.cc [ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_viewer.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_viewer.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/sequence_viewer.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/sequence_viewer.cc.o -c /<>/modules/gui/src/sequence_viewer/sequence_viewer.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/chain_view.hh:23, from /<>/modules/gui/src/sequence_viewer/sequence_model.hh:28, from /<>/modules/gui/src/sequence_viewer/sequence_delegate.hh:28, from /<>/modules/gui/src/sequence_viewer/sequence_table_view.hh:29, from /<>/modules/gui/src/sequence_viewer/sequence_table_view.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/module_config.hh:26, from /<>/modules/gui/src/sequence_viewer/sequence_table_view.hh:27: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/modules/gui/src/sequence_viewer/sequence_model.hh:30: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 84%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/tick_painter.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/tick_painter.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/tick_painter.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/tick_painter.cc.o -c /<>/modules/gui/src/sequence_viewer/tick_painter.cc [ 85%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/title_row.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/title_row.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/title_row.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/title_row.cc.o -c /<>/modules/gui/src/sequence_viewer/title_row.cc [ 85%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/alignment_view_object.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/alignment_view_object.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/alignment_view_object.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/alignment_view_object.cc.o -c /<>/modules/gui/src/sequence_viewer/alignment_view_object.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/chain_view.hh:23, from /<>/modules/gui/src/sequence_viewer/sequence_viewer.cc:28: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /<>/modules/gui/src/sequence_viewer/sequence_viewer.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/chain_view.hh:23, from /<>/modules/gui/src/sequence_viewer/sequence_model.hh:28, from /<>/modules/gui/src/sequence_viewer/title_row.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/chain_view.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/modules/gui/src/sequence_viewer/sequence_model.hh:30, from /<>/modules/gui/src/sequence_viewer/sequence_viewer.cc:39: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/modules/gui/src/sequence_viewer/sequence_model.hh:30: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /<>/modules/gui/src/sequence_viewer/painter.hh:27, from /<>/modules/gui/src/sequence_viewer/tick_painter.hh:27, from /<>/modules/gui/src/sequence_viewer/tick_painter.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/algorithm:60, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/qglobal.h:142, from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QtCore:4, from /usr/include/arm-linux-gnueabihf/qt5/QtGui/QtGuiDepends:3, from /usr/include/arm-linux-gnueabihf/qt5/QtGui/QtGui:3, from /<>/modules/gui/src/sequence_viewer/tick_painter.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 85%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/base_view_object.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/base_view_object.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/base_view_object.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/base_view_object.cc.o -c /<>/modules/gui/src/sequence_viewer/base_view_object.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/gui/src/sequence_viewer/alignment_view_object.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_region.hh:26, from /<>/modules/gui/src/sequence_viewer/alignment_view_object.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_region.hh:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:29:43: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 29 | class AlignedColumnIterator : public std::iterator>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/sequence_viewer/sequence_view_object.cc.o -MF CMakeFiles/ost_gui.dir/sequence_viewer/sequence_view_object.cc.o.d -o CMakeFiles/ost_gui.dir/sequence_viewer/sequence_view_object.cc.o -c /<>/modules/gui/src/sequence_viewer/sequence_view_object.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_renderer.hh:38, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:41, from /<>/modules/gui/src/sequence_viewer/sequence_view_object.hh:30, from /<>/modules/gui/src/sequence_viewer/alignment_view_object.hh:32, from /<>/modules/gui/src/sequence_viewer/alignment_view_object.cc:41: /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_node.hh:55:16: warning: ‘virtual void ost::gfx::GfxNode::DeepSwap(ost::gfx::GfxNode&)’ was hidden [-Woverloaded-virtual=] 55 | virtual void DeepSwap(GfxNode& n); | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:58:16: note: by ‘virtual void ost::gfx::GfxObj::DeepSwap(ost::gfx::GfxObj&)’ 58 | virtual void DeepSwap(GfxObj& go); | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_structure_segments.hh:25, from /<>/modules/gui/src/sequence_viewer/painter.hh:27, from /<>/modules/gui/src/sequence_viewer/base_row.hh:27, from /<>/modules/gui/src/sequence_viewer/base_view_object.hh:27, from /<>/modules/gui/src/sequence_viewer/base_view_object.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 85%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/gosty_app.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/gosty_app.cc.o -MF CMakeFiles/ost_gui.dir/gosty_app.cc.o.d -o CMakeFiles/ost_gui.dir/gosty_app.cc.o -c /<>/modules/gui/src/gosty_app.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/gui/src/sequence_viewer/sequence_view_object.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_renderer.hh:38, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:41, from /<>/modules/gui/src/sequence_viewer/sequence_view_object.hh:30, from /<>/modules/gui/src/sequence_viewer/sequence_view_object.cc:32: /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_node.hh:55:16: warning: ‘virtual void ost::gfx::GfxNode::DeepSwap(ost::gfx::GfxNode&)’ was hidden [-Woverloaded-virtual=] 55 | virtual void DeepSwap(GfxNode& n); | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:58:16: note: by ‘virtual void ost::gfx::GfxObj::DeepSwap(ost::gfx::GfxObj&)’ 58 | virtual void DeepSwap(GfxObj& go); | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/modules/gui/src/sequence_viewer/sequence_view_object.hh:32: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 85%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/main_area.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/main_area.cc.o -MF CMakeFiles/ost_gui.dir/main_area.cc.o.d -o CMakeFiles/ost_gui.dir/main_area.cc.o -c /<>/modules/gui/src/main_area.cc [ 85%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/widget_state_saver.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/widget_state_saver.cc.o -MF CMakeFiles/ost_gui.dir/widget_state_saver.cc.o.d -o CMakeFiles/ost_gui.dir/widget_state_saver.cc.o -c /<>/modules/gui/src/widget_state_saver.cc [ 85%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_selection.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_selection.cc.o -MF CMakeFiles/ost_gui.dir/scene_selection.cc.o.d -o CMakeFiles/ost_gui.dir/scene_selection.cc.o -c /<>/modules/gui/src/scene_selection.cc [ 85%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/widget_geom_handler.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/widget_geom_handler.cc.o -MF CMakeFiles/ost_gui.dir/widget_geom_handler.cc.o.d -o CMakeFiles/ost_gui.dir/widget_geom_handler.cc.o -c /<>/modules/gui/src/widget_geom_handler.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/scene_win.hh:23, from /<>/modules/gui/src/gosty_app.cc:28: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /<>/modules/gui/src/gosty_app.hh:28, from /<>/modules/gui/src/gosty_app.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_viewer.hh:28, from /<>/modules/gui/src/gosty_app.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 85%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/file_loader.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/file_loader.cc.o -MF CMakeFiles/ost_gui.dir/file_loader.cc.o.d -o CMakeFiles/ost_gui.dir/file_loader.cc.o -c /<>/modules/gui/src/file_loader.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_viewer.hh:31: /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:62:16: warning: ‘virtual void ost::gfx::GfxObj::Apply(ost::gfx::GfxNodeVisitor&, ost::gfx::GfxNodeVisitor::Stack)’ was hidden [-Woverloaded-virtual=] 62 | virtual void Apply(GfxNodeVisitor& v, GfxNodeVisitor::Stack st); | ^~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_viewer.hh:32: /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:294:8: note: by ‘ost::gfx::Entity::Apply’ 294 | void Apply(const gfx::MapHandleColorOp& op, bool store=true); | ^~~~~ [ 85%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/button_bar.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/button_bar.cc.o -MF CMakeFiles/ost_gui.dir/panels/button_bar.cc.o.d -o CMakeFiles/ost_gui.dir/panels/button_bar.cc.o -c /<>/modules/gui/src/panels/button_bar.cc [ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/drop_box.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/drop_box.cc.o -MF CMakeFiles/ost_gui.dir/panels/drop_box.cc.o.d -o CMakeFiles/ost_gui.dir/panels/drop_box.cc.o -c /<>/modules/gui/src/panels/drop_box.cc [ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/panel_bar.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/panel_bar.cc.o -MF CMakeFiles/ost_gui.dir/panels/panel_bar.cc.o.d -o CMakeFiles/ost_gui.dir/panels/panel_bar.cc.o -c /<>/modules/gui/src/panels/panel_bar.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /<>/modules/gui/src/panels/drop_box.hh:22, from /<>/modules/gui/src/panels/drop_box.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /usr/include/boost/ptr_container/ptr_vector.hpp:19, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/view_op.hh:29, from /<>/modules/gui/src/scene_selection.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /<>/modules/gui/src/scene_selection.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/modules/gui/src/scene_selection.cc:28: /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:62:16: warning: ‘virtual void ost::gfx::GfxObj::Apply(ost::gfx::GfxNodeVisitor&, ost::gfx::GfxNodeVisitor::Stack)’ was hidden [-Woverloaded-virtual=] 62 | virtual void Apply(GfxNodeVisitor& v, GfxNodeVisitor::Stack st); | ^~~~~ In file included from /<>/modules/gui/src/scene_selection.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:294:8: note: by ‘ost::gfx::Entity::Apply’ 294 | void Apply(const gfx::MapHandleColorOp& op, bool store=true); | ^~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /<>/modules/gui/src/file_loader.hh:24, from /<>/modules/gui/src/file_loader.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /<>/modules/gui/src/file_loader.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /<>/modules/gui/src/file_loader.hh:30: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/bottom_bar.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/bottom_bar.cc.o -MF CMakeFiles/ost_gui.dir/panels/bottom_bar.cc.o.d -o CMakeFiles/ost_gui.dir/panels/bottom_bar.cc.o -c /<>/modules/gui/src/panels/bottom_bar.cc [ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/button_box.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/button_box.cc.o -MF CMakeFiles/ost_gui.dir/panels/button_box.cc.o.d -o CMakeFiles/ost_gui.dir/panels/button_box.cc.o -c /<>/modules/gui/src/panels/button_box.cc [ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/event_button.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/event_button.cc.o -MF CMakeFiles/ost_gui.dir/panels/event_button.cc.o.d -o CMakeFiles/ost_gui.dir/panels/event_button.cc.o -c /<>/modules/gui/src/panels/event_button.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /<>/modules/gui/src/panels/drop_box.hh:22, from /<>/modules/gui/src/panels/panel_bar.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /<>/modules/gui/src/panels/panel_bar.cc:21: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/panel_manager.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/panel_manager.cc.o -MF CMakeFiles/ost_gui.dir/panels/panel_manager.cc.o.d -o CMakeFiles/ost_gui.dir/panels/panel_manager.cc.o -c /<>/modules/gui/src/panels/panel_manager.cc [ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/panel_widget_container.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/panel_widget_container.cc.o -MF CMakeFiles/ost_gui.dir/panels/panel_widget_container.cc.o.d -o CMakeFiles/ost_gui.dir/panels/panel_widget_container.cc.o -c /<>/modules/gui/src/panels/panel_widget_container.cc [ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/panel_bar_widget_holder.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/panel_bar_widget_holder.cc.o -MF CMakeFiles/ost_gui.dir/panels/panel_bar_widget_holder.cc.o.d -o CMakeFiles/ost_gui.dir/panels/panel_bar_widget_holder.cc.o -c /<>/modules/gui/src/panels/panel_bar_widget_holder.cc [ 87%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/side_bar.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/side_bar.cc.o -MF 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-isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/splitter_panel_bar.cc.o -MF CMakeFiles/ost_gui.dir/panels/splitter_panel_bar.cc.o.d -o CMakeFiles/ost_gui.dir/panels/splitter_panel_bar.cc.o -c /<>/modules/gui/src/panels/splitter_panel_bar.cc [ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/panels/tabbed_panel_bar.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/panels/tabbed_panel_bar.cc.o -MF CMakeFiles/ost_gui.dir/panels/tabbed_panel_bar.cc.o.d -o CMakeFiles/ost_gui.dir/panels/tabbed_panel_bar.cc.o -c /<>/modules/gui/src/panels/tabbed_panel_bar.cc [ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_option_group.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_option_group.cc.o -MF CMakeFiles/ost_gui.dir/tools/tool_option_group.cc.o.d -o CMakeFiles/ost_gui.dir/tools/tool_option_group.cc.o -c /<>/modules/gui/src/tools/tool_option_group.cc [ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_options.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_options.cc.o -MF CMakeFiles/ost_gui.dir/tools/tool_options.cc.o.d -o CMakeFiles/ost_gui.dir/tools/tool_options.cc.o -c /<>/modules/gui/src/tools/tool_options.cc [ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_option.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK 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-fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_option.cc.o -MF CMakeFiles/ost_gui.dir/tools/tool_option.cc.o.d -o CMakeFiles/ost_gui.dir/tools/tool_option.cc.o -c /<>/modules/gui/src/tools/tool_option.cc [ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_manager.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_manager.cc.o -MF CMakeFiles/ost_gui.dir/tools/tool_manager.cc.o.d -o CMakeFiles/ost_gui.dir/tools/tool_manager.cc.o -c /<>/modules/gui/src/tools/tool_manager.cc [ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_options_win.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_options_win.cc.o -MF CMakeFiles/ost_gui.dir/tools/tool_options_win.cc.o.d -o CMakeFiles/ost_gui.dir/tools/tool_options_win.cc.o -c /<>/modules/gui/src/tools/tool_options_win.cc [ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool.cc.o -MF CMakeFiles/ost_gui.dir/tools/tool.cc.o.d -o CMakeFiles/ost_gui.dir/tools/tool.cc.o -c /<>/modules/gui/src/tools/tool.cc [ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/mouse_event.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/mouse_event.cc.o -MF CMakeFiles/ost_gui.dir/tools/mouse_event.cc.o.d -o CMakeFiles/ost_gui.dir/tools/mouse_event.cc.o -c /<>/modules/gui/src/tools/mouse_event.cc [ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/manipulator.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/manipulator.cc.o -MF CMakeFiles/ost_gui.dir/tools/manipulator.cc.o.d -o CMakeFiles/ost_gui.dir/tools/manipulator.cc.o -c /<>/modules/gui/src/tools/manipulator.cc [ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_options_widget.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_options_widget.cc.o -MF CMakeFiles/ost_gui.dir/tools/tool_options_widget.cc.o.d -o CMakeFiles/ost_gui.dir/tools/tool_options_widget.cc.o -c /<>/modules/gui/src/tools/tool_options_widget.cc [ 88%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_bar.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/tool_bar.cc.o -MF CMakeFiles/ost_gui.dir/tools/tool_bar.cc.o.d -o CMakeFiles/ost_gui.dir/tools/tool_bar.cc.o -c /<>/modules/gui/src/tools/tool_bar.cc [ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/selection_tool.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/selection_tool.cc.o -MF CMakeFiles/ost_gui.dir/tools/selection_tool.cc.o.d -o CMakeFiles/ost_gui.dir/tools/selection_tool.cc.o -c /<>/modules/gui/src/tools/selection_tool.cc [ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/measure_tool.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/measure_tool.cc.o -MF CMakeFiles/ost_gui.dir/tools/measure_tool.cc.o.d -o CMakeFiles/ost_gui.dir/tools/measure_tool.cc.o -c /<>/modules/gui/src/tools/measure_tool.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:37, from /<>/modules/gui/src/tools/manipulator.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /<>/modules/gui/src/tools/manipulator.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:37, from /<>/modules/gui/src/tools/selection_tool.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool.hh:25, from /<>/modules/gui/src/tools/selection_tool.hh:26, from /<>/modules/gui/src/tools/selection_tool.cc:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /<>/modules/gui/src/tools/measure_tool.hh:28, from /<>/modules/gui/src/tools/measure_tool.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool.hh:25, from /<>/modules/gui/src/tools/measure_tool.hh:26: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /<>/modules/gui/src/tools/tool_bar.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /<>/modules/gui/src/tools/tool_bar.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/gutter.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/gutter.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/gutter.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/gutter.cc.o -c /<>/modules/gui/src/python_shell/gutter.cc [ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/main_thread_runner.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/main_thread_runner.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/main_thread_runner.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/main_thread_runner.cc.o -c /<>/modules/gui/src/python_shell/main_thread_runner.cc [ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/output_redirector.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/output_redirector.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/output_redirector.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/output_redirector.cc.o -c /<>/modules/gui/src/python_shell/output_redirector.cc [ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/completer_base.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/completer_base.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/completer_base.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/completer_base.cc.o -c /<>/modules/gui/src/python_shell/completer_base.cc [ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/dir_model.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/dir_model.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/dir_model.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/dir_model.cc.o -c /<>/modules/gui/src/python_shell/dir_model.cc /<>/modules/gui/src/python_shell/dir_model.cc: In constructor ‘ost::gui::OstDirModel::OstDirModel(QObject*)’: /<>/modules/gui/src/python_shell/dir_model.cc:31:18: warning: ‘QDirModel::QDirModel(QObject*)’ is deprecated: Use QFileSystemModel [-Wdeprecated-declarations] 31 | QDirModel(parent) | ^ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/QDirModel:1, from /<>/modules/gui/src/python_shell/dir_model.hh:26, from /<>/modules/gui/src/python_shell/dir_model.cc:23: /usr/include/arm-linux-gnueabihf/qt5/QtWidgets/qdirmodel.h:73:67: note: declared here 73 | QT_DEPRECATED_VERSION_X_5_15("Use QFileSystemModel") explicit QDirModel(QObject *parent = nullptr); | ^~~~~~~~~ [ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/path_completer.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/path_completer.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/path_completer.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/path_completer.cc.o -c /<>/modules/gui/src/python_shell/path_completer.cc [ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_context_parser.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_context_parser.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/python_context_parser.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/python_context_parser.cc.o -c /<>/modules/gui/src/python_shell/python_context_parser.cc [ 89%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_completer.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_completer.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/python_completer.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/python_completer.cc.o -c /<>/modules/gui/src/python_shell/python_completer.cc [ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_interpreter.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB 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CMakeFiles/ost_gui.dir/python_shell/python_interpreter_worker.cc.o -c /<>/modules/gui/src/python_shell/python_interpreter_worker.cc [ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_namespace_tree_model.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_namespace_tree_model.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/python_namespace_tree_model.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/python_namespace_tree_model.cc.o -c /<>/modules/gui/src/python_shell/python_namespace_tree_model.cc [ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_namespace_tree_item.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_namespace_tree_item.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/python_namespace_tree_item.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/python_namespace_tree_item.cc.o -c /<>/modules/gui/src/python_shell/python_namespace_tree_item.cc [ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_shell.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB 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-D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_shell.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/python_shell.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/python_shell.cc.o -c /<>/modules/gui/src/python_shell/python_shell.cc [ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_shell_widget.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI 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-isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_shell_text_document_layout.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/python_shell_text_document_layout.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/python_shell_text_document_layout.cc.o -c /<>/modules/gui/src/python_shell/python_shell_text_document_layout.cc [ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/python_tokenizer.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 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/<>/modules/gui/src/python_shell/shell_history.cc [ 91%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/string_literal_positions.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem 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/usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/state.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/state.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/state.cc.o -c /<>/modules/gui/src/python_shell/state.cc [ 92%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/transition.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ 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-Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/transition.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/transition.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/transition.cc.o -c /<>/modules/gui/src/python_shell/transition.cc [ 92%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/transition_guard.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB 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modules/gui/src/CMakeFiles/ost_gui.dir/python_shell/transition_guard.cc.o -MF CMakeFiles/ost_gui.dir/python_shell/transition_guard.cc.o.d -o CMakeFiles/ost_gui.dir/python_shell/transition_guard.cc.o -c /<>/modules/gui/src/python_shell/transition_guard.cc [ 92%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/context_menu.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/context_menu.cc.o -MF CMakeFiles/ost_gui.dir/scene_win/context_menu.cc.o.d -o CMakeFiles/ost_gui.dir/scene_win/context_menu.cc.o -c /<>/modules/gui/src/scene_win/context_menu.cc [ 92%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/current_selection_node.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem 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-D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/custom_part_node.cc.o -MF CMakeFiles/ost_gui.dir/scene_win/custom_part_node.cc.o.d -o CMakeFiles/ost_gui.dir/scene_win/custom_part_node.cc.o -c /<>/modules/gui/src/scene_win/custom_part_node.cc [ 92%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/scene_node.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/scene_node.cc.o -MF CMakeFiles/ost_gui.dir/scene_win/scene_node.cc.o.d -o CMakeFiles/ost_gui.dir/scene_win/scene_node.cc.o -c /<>/modules/gui/src/scene_win/scene_node.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:37, from /<>/modules/gui/src/scene_win/context_menu.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /usr/include/boost/pointer_cast.hpp:52, from /<>/modules/gui/src/scene_win/context_menu.cc:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 92%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/label_node.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/label_node.cc.o -MF CMakeFiles/ost_gui.dir/scene_win/label_node.cc.o.d -o CMakeFiles/ost_gui.dir/scene_win/label_node.cc.o -c /<>/modules/gui/src/scene_win/label_node.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/map_iso.hh:33, from /<>/modules/gui/src/scene_win/context_menu.cc:31: /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:62:16: warning: ‘virtual void ost::gfx::GfxObj::Apply(ost::gfx::GfxNodeVisitor&, ost::gfx::GfxNodeVisitor::Stack)’ was hidden [-Woverloaded-virtual=] 62 | virtual void Apply(GfxNodeVisitor& v, GfxNodeVisitor::Stack st); | ^~~~~ In file included from /<>/modules/gui/src/scene_win/entity_node.hh:28, from /<>/modules/gui/src/scene_win/context_menu.cc:34: /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:294:8: note: by ‘ost::gfx::Entity::Apply’ 294 | void Apply(const gfx::MapHandleColorOp& op, bool store=true); | ^~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /<>/modules/gui/src/scene_win/custom_part_node.hh:23, from /<>/modules/gui/src/scene_win/custom_part_node.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:18, from /usr/include/boost/shared_ptr.hpp:17, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/view_type_fw.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /<>/modules/gui/src/scene_win/current_selection_node.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /<>/modules/gui/src/scene_win/current_selection_node.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 93%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/entity_node.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/entity_node.cc.o -MF CMakeFiles/ost_gui.dir/scene_win/entity_node.cc.o.d -o CMakeFiles/ost_gui.dir/scene_win/entity_node.cc.o -c /<>/modules/gui/src/scene_win/entity_node.cc [ 93%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/entity_part_node.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/entity_part_node.cc.o -MF CMakeFiles/ost_gui.dir/scene_win/entity_part_node.cc.o.d -o CMakeFiles/ost_gui.dir/scene_win/entity_part_node.cc.o -c /<>/modules/gui/src/scene_win/entity_part_node.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:29, from /<>/modules/gui/src/scene_win/label_node.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/module_config.hh:26, from /<>/modules/gui/src/scene_win/label_node.hh:23, from /<>/modules/gui/src/scene_win/label_node.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 93%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/gfx_scene_node.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/gfx_scene_node.cc.o -MF CMakeFiles/ost_gui.dir/scene_win/gfx_scene_node.cc.o.d -o CMakeFiles/ost_gui.dir/scene_win/gfx_scene_node.cc.o -c /<>/modules/gui/src/scene_win/gfx_scene_node.cc [ 93%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/render_mode_node.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/render_mode_node.cc.o -MF CMakeFiles/ost_gui.dir/scene_win/render_mode_node.cc.o.d -o CMakeFiles/ost_gui.dir/scene_win/render_mode_node.cc.o -c /<>/modules/gui/src/scene_win/render_mode_node.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /<>/modules/gui/src/scene_win/entity_part_node.hh:23, from /<>/modules/gui/src/scene_win/entity_part_node.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:18, from /usr/include/boost/shared_ptr.hpp:17, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/view_type_fw.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/scene_win_model.hh:28, from /<>/modules/gui/src/scene_win/gfx_scene_node.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_node_fw.hh:25, from /<>/modules/gui/src/scene_win/gfx_scene_node.hh:23, from /<>/modules/gui/src/scene_win/gfx_scene_node.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /<>/modules/gui/src/scene_win/render_mode_node.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:18, from /usr/include/boost/shared_ptr.hpp:17, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/view_type_fw.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 93%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/render_modes_node.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/render_modes_node.cc.o -MF CMakeFiles/ost_gui.dir/scene_win/render_modes_node.cc.o.d -o CMakeFiles/ost_gui.dir/scene_win/render_modes_node.cc.o -c /<>/modules/gui/src/scene_win/render_modes_node.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_renderer.hh:38, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:41, from /<>/modules/gui/src/scene_win/render_mode_node.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_node.hh:55:16: warning: ‘virtual void ost::gfx::GfxNode::DeepSwap(ost::gfx::GfxNode&)’ was hidden [-Woverloaded-virtual=] 55 | virtual void DeepSwap(GfxNode& n); | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:58:16: note: by ‘virtual void ost::gfx::GfxObj::DeepSwap(ost::gfx::GfxObj&)’ 58 | virtual void DeepSwap(GfxObj& go); | ^~~~~~~~ [ 93%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/root_node.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/root_node.cc.o -MF CMakeFiles/ost_gui.dir/scene_win/root_node.cc.o.d -o CMakeFiles/ost_gui.dir/scene_win/root_node.cc.o -c /<>/modules/gui/src/scene_win/root_node.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/modules/gui/src/scene_win/entity_node.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /<>/modules/gui/src/scene_win/entity_node.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 93%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/scene_win.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/scene_win.cc.o -MF CMakeFiles/ost_gui.dir/scene_win/scene_win.cc.o.d -o CMakeFiles/ost_gui.dir/scene_win/scene_win.cc.o -c /<>/modules/gui/src/scene_win/scene_win.cc [ 93%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/scene_win_model.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/scene_win/scene_win_model.cc.o -MF CMakeFiles/ost_gui.dir/scene_win/scene_win_model.cc.o.d -o CMakeFiles/ost_gui.dir/scene_win/scene_win_model.cc.o -c /<>/modules/gui/src/scene_win/scene_win_model.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:37, from /<>/modules/gui/src/scene_win/root_node.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/module_config.hh:26, from /<>/modules/gui/src/scene_win/root_node.hh:23, from /<>/modules/gui/src/scene_win/root_node.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 93%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/tools/map_tool.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/tools/map_tool.cc.o -MF CMakeFiles/ost_gui.dir/tools/map_tool.cc.o.d -o CMakeFiles/ost_gui.dir/tools/map_tool.cc.o -c /<>/modules/gui/src/tools/map_tool.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/scene.hh:37, from /<>/modules/gui/src/scene_win/render_modes_node.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /<>/modules/gui/src/scene_win/render_modes_node.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /<>/modules/gui/src/scene_win/scene_win_model.hh:28, from /<>/modules/gui/src/scene_win/scene_win_model.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:18, from /usr/include/boost/shared_ptr.hpp:17, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/view_type_fw.hh:22, from /<>/modules/gui/src/scene_win/scene_win_model.hh:27: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_renderer.hh:38, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:41, from /<>/modules/gui/src/scene_win/render_modes_node.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:62:16: warning: ‘virtual void ost::gfx::GfxObj::Apply(ost::gfx::GfxNodeVisitor&, ost::gfx::GfxNodeVisitor::Stack)’ was hidden [-Woverloaded-virtual=] 62 | virtual void Apply(GfxNodeVisitor& v, GfxNodeVisitor::Stack st); | ^~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/entity.hh:294:8: note: by ‘ost::gfx::Entity::Apply’ 294 | void Apply(const gfx::MapHandleColorOp& op, bool store=true); | ^~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_selection.hh:23, from /<>/modules/gui/src/scene_win/scene_win.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /<>/modules/gui/src/scene_win/scene_win.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 93%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/argand.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/argand.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/argand.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/argand.cc.o -c /<>/modules/gui/src/data_viewer/argand.cc /<>/modules/gui/src/scene_win/scene_win.cc: In member function ‘void ost::gui::SceneWin::RowsInserted(const QModelIndex&, int, int)’: /<>/modules/gui/src/scene_win/scene_win.cc:117:31: warning: ‘QModelIndex QModelIndex::child(int, int) const’ is deprecated: Use QAbstractItemModel::index [-Wdeprecated-declarations] 117 | model->select(parent.child(start,0),QItemSelectionModel::ClearAndSelect|QItemSelectionModel::Rows); | ~~~~~~~~~~~~^~~~~~~~~ In file included from /usr/include/arm-linux-gnueabihf/qt5/QtCore/QModelIndex:1, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/scene_node.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/scene_win_model.hh:34, from /<>/modules/gui/src/scene_win/scene_win.cc:26: /usr/include/arm-linux-gnueabihf/qt5/QtCore/qabstractitemmodel.h:455:20: note: declared here 455 | inline QModelIndex QModelIndex::child(int arow, int acolumn) const | ^~~~~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/map_slab.hh:29, from /<>/modules/gui/src/tools/map_tool.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/platform.hh:22, from /<>/modules/gui/src/tools/map_tool.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 93%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/data_viewer.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/data_viewer.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/data_viewer.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/data_viewer.cc.o -c /<>/modules/gui/src/data_viewer/data_viewer.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/modules/gui/src/data_viewer/argand.hh:30, from /<>/modules/gui/src/data_viewer/argand.cc:28: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/modules/gui/src/data_viewer/argand.cc:26: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 94%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/data_viewer_panel.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/data_viewer_panel.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/data_viewer_panel.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/data_viewer_panel.cc.o -c /<>/modules/gui/src/data_viewer/data_viewer_panel.cc [ 94%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/data_viewer_panel_base.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/data_viewer_panel_base.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/data_viewer_panel_base.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/data_viewer_panel_base.cc.o -c /<>/modules/gui/src/data_viewer/data_viewer_panel_base.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /<>/modules/gui/src/data_viewer/data_viewer_panel_base.hh:34, from /<>/modules/gui/src/data_viewer/data_viewer_panel.hh:24, from /<>/modules/gui/src/data_viewer/data_viewer_panel.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/module_config.hh:26, from /<>/modules/gui/src/data_viewer/data_viewer_panel.hh:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 94%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/draw_overlay.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/draw_overlay.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/draw_overlay.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/draw_overlay.cc.o -c /<>/modules/gui/src/data_viewer/draw_overlay.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/normalizer_impl.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/norm_linear.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/norm.hh:30, from /<>/modules/gui/src/data_viewer/data_viewer_panel_base.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:18, from /usr/include/boost/shared_ptr.hpp:17, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/normalizer_impl.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 94%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/drawing_functions.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/drawing_functions.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/drawing_functions.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/drawing_functions.cc.o -c /<>/modules/gui/src/data_viewer/drawing_functions.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /<>/modules/gui/src/data_viewer/data_viewer_panel_base.hh:34, from /<>/modules/gui/src/data_viewer/data_viewer_panel.hh:24, from /<>/modules/gui/src/data_viewer/draw_overlay.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/module_config.hh:26, from /<>/modules/gui/src/data_viewer/data_viewer_panel.hh:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/gui/src/data_viewer/drawing_functions.hh:28, from /<>/modules/gui/src/data_viewer/drawing_functions.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/algorithm:60, from /<>/modules/gui/src/data_viewer/drawing_functions.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/normalizer_impl.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/norm_linear.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/norm.hh:30, from /<>/modules/gui/src/data_viewer/data_viewer.cc:36: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/main.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/gosty_app.hh:28, from /<>/modules/gui/src/data_viewer/data_viewer.cc:26: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 94%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/fft_panel.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/fft_panel.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/fft_panel.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/fft_panel.cc.o -c /<>/modules/gui/src/data_viewer/fft_panel.cc [ 94%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/info_panel.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/info_panel.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/info_panel.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/info_panel.cc.o -c /<>/modules/gui/src/data_viewer/info_panel.cc [ 94%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/img2qt.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/img2qt.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/img2qt.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/img2qt.cc.o -c /<>/modules/gui/src/data_viewer/img2qt.cc [ 94%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/mask_overlay.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/mask_overlay.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/mask_overlay.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/mask_overlay.cc.o -c /<>/modules/gui/src/data_viewer/mask_overlay.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/modules/gui/src/data_viewer/info_panel.cc:28: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /usr/include/boost/format.hpp:17, from /<>/modules/gui/src/data_viewer/info_panel.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/modules/gui/src/data_viewer/img2qt.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/fft.hh:27, from /<>/modules/gui/src/data_viewer/fft_panel.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/fft.hh:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/circle_mask.hh:25, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/mask_visitor.hh:28, from /<>/modules/gui/src/data_viewer/mask_overlay.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 94%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/null_overlay.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/null_overlay.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/null_overlay.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/null_overlay.cc.o -c /<>/modules/gui/src/data_viewer/null_overlay.cc [ 94%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/overlay_base.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/overlay_base.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/overlay_base.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/overlay_base.cc.o -c /<>/modules/gui/src/data_viewer/overlay_base.cc [ 96%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/overlay_manager.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/overlay_manager.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/overlay_manager.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/overlay_manager.cc.o -c /<>/modules/gui/src/data_viewer/overlay_manager.cc [ 96%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/overlay_manager_gui.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/overlay_manager_gui.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/overlay_manager_gui.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/overlay_manager_gui.cc.o -c /<>/modules/gui/src/data_viewer/overlay_manager_gui.cc [ 96%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/pointlist_overlay.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/pointlist_overlay.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/pointlist_overlay.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/pointlist_overlay.cc.o -c /<>/modules/gui/src/data_viewer/pointlist_overlay.cc [ 96%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/pointlist_overlay_base.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/pointlist_overlay_base.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/pointlist_overlay_base.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/pointlist_overlay_base.cc.o -c /<>/modules/gui/src/data_viewer/pointlist_overlay_base.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /<>/modules/gui/src/data_viewer/data_viewer_panel_base.hh:34, from /<>/modules/gui/src/data_viewer/data_viewer_panel.hh:24, from /<>/modules/gui/src/data_viewer/overlay_manager.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/gui/src/data_viewer/overlay_manager.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /<>/modules/gui/src/data_viewer/data_viewer_panel_base.hh:34, from /<>/modules/gui/src/data_viewer/data_viewer_panel.hh:24, from /<>/modules/gui/src/data_viewer/pointlist_overlay.cc:28: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/message.hh:29, from /<>/modules/gui/src/data_viewer/pointlist_overlay.cc:26: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /<>/modules/gui/src/data_viewer/data_viewer_panel_base.hh:34, from /<>/modules/gui/src/data_viewer/data_viewer_panel.hh:24, from /<>/modules/gui/src/data_viewer/pointlist_overlay_base.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/module_config.hh:26, from /<>/modules/gui/src/data_viewer/data_viewer_panel.hh:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 96%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/strategies.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/strategies.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/strategies.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/strategies.cc.o -c /<>/modules/gui/src/data_viewer/strategies.cc [ 96%] Building CXX object modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/viewer_normalizer.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DOST_MODULE_OST_GUI -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -Dost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/src/CMakeFiles/ost_gui.dir/data_viewer/viewer_normalizer.cc.o -MF CMakeFiles/ost_gui.dir/data_viewer/viewer_normalizer.cc.o.d -o CMakeFiles/ost_gui.dir/data_viewer/viewer_normalizer.cc.o -c /<>/modules/gui/src/data_viewer/viewer_normalizer.cc In file included from /usr/include/c++/13/vector:72, from /usr/include/c++/13/functional:64, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:37, from /usr/include/boost/smart_ptr/shared_ptr.hpp:18, from /usr/include/boost/shared_ptr.hpp:17, from /<>/modules/gui/src/data_viewer/data_viewer_panel_base.hh:32: /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = std::pair; _Alloc = std::allocator >]’ at /usr/include/c++/13/bits/stl_vector.h:1299:21, inlined from ‘virtual bool ost::img::gui::PointlistOverlay::OnMouseEvent(QMouseEvent*, ost::img::gui::DataViewerPanel*, const QPoint&)’ at /<>/modules/gui/src/data_viewer/pointlist_overlay.cc:108:25, inlined from ‘virtual bool ost::img::gui::PointlistOverlay::OnMouseEvent(QMouseEvent*, ost::img::gui::DataViewerPanel*, const QPoint&)’ at /<>/modules/gui/src/data_viewer/pointlist_overlay.cc:95:6: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = std::pair; _Alloc = std::allocator >]’ at /usr/include/c++/13/bits/stl_vector.h:1299:21, inlined from ‘void ost::img::gui::PointlistOverlay::Add(const ost::img::Point&, double)’ at /<>/modules/gui/src/data_viewer/pointlist_overlay.cc:59:23: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/gui/src/data_viewer/strategies.hh:29, from /<>/modules/gui/src/data_viewer/strategies.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /usr/include/c++/13/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(iterator, _Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’: /usr/include/c++/13/bits/vector.tcc:445:7: note: parameter passing for argument of type ‘std::vector >::iterator’ changed in GCC 7.1 445 | vector<_Tp, _Alloc>:: | ^~~~~~~~~~~~~~~~~~~ In member function ‘std::vector<_Tp, _Alloc>::reference std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {std::pair}; _Tp = std::pair; _Alloc = std::allocator >]’, inlined from ‘void std::vector<_Tp, _Alloc>::push_back(value_type&&) [with _Tp = std::pair; _Alloc = std::allocator >]’ at /usr/include/c++/13/bits/stl_vector.h:1299:21, inlined from ‘virtual void ost::img::gui::PointlistOverlay::OnDraw(QPainter&, ost::img::gui::DataViewerPanel*, bool)’ at /<>/modules/gui/src/data_viewer/pointlist_overlay.cc:87:25: /usr/include/c++/13/bits/vector.tcc:123:28: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator*, std::vector > >’ changed in GCC 7.1 123 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/stat.hh:30, from /<>/modules/gui/src/data_viewer/viewer_normalizer.cc:30: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/gui/src/data_viewer/viewer_normalizer.cc:26: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 96%] Linking CXX shared library ../../../stage/lib/libost_gui.so cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_gui.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 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/usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/gui/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/gui/pymod /<>/obj-arm-linux-gnueabihf/modules/gui/pymod/CMakeFiles/_ost_gui.dir/DependInfo.cmake "--color=" [ 96%] Generating qrc_dngr.cpp [ 96%] Generating moc_gosty.cpp cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/rcc --name dngr --output /<>/obj-arm-linux-gnueabihf/modules/gui/src/qrc_dngr.cpp /<>/modules/gui/src/dngr.qrc make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/gui/pymod/CMakeFiles/_ost_gui.dir/build.make modules/gui/pymod/CMakeFiles/_ost_gui.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/lib/qt5/bin/moc @/<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_gosty.cpp_parameters make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 96%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/wrap_gui.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/wrap_gui.cc.o -MF CMakeFiles/_ost_gui.dir/wrap_gui.cc.o.d -o CMakeFiles/_ost_gui.dir/wrap_gui.cc.o -c /<>/modules/gui/pymod/wrap_gui.cc [ 96%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_alignment_view.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_alignment_view.cc.o -MF CMakeFiles/_ost_gui.dir/export_alignment_view.cc.o.d -o CMakeFiles/_ost_gui.dir/export_alignment_view.cc.o -c /<>/modules/gui/pymod/export_alignment_view.cc cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/gui/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/gui/src /<>/obj-arm-linux-gnueabihf/modules/gui/src/CMakeFiles/gosty.dir/DependInfo.cmake "--color=" [ 96%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_message_widget.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_message_widget.cc.o -MF CMakeFiles/_ost_gui.dir/export_message_widget.cc.o.d -o CMakeFiles/_ost_gui.dir/export_message_widget.cc.o -c /<>/modules/gui/pymod/export_message_widget.cc make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/gui/src/CMakeFiles/gosty.dir/build.make modules/gui/src/CMakeFiles/gosty.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 96%] Building CXX object modules/gui/src/CMakeFiles/gosty.dir/gosty.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/gui/src/CMakeFiles/gosty.dir/gosty.cc.o -MF CMakeFiles/gosty.dir/gosty.cc.o.d -o CMakeFiles/gosty.dir/gosty.cc.o -c /<>/modules/gui/src/gosty.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_viewer.hh:28, from /<>/modules/gui/pymod/export_alignment_view.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/gui/pymod/export_alignment_view.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 96%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_gl_win.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_gl_win.cc.o -MF CMakeFiles/_ost_gui.dir/export_gl_win.cc.o.d -o CMakeFiles/_ost_gui.dir/export_gl_win.cc.o -c /<>/modules/gui/pymod/export_gl_win.cc [ 96%] Building CXX object modules/gui/src/CMakeFiles/gosty.dir/moc_gosty.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/gui/src/CMakeFiles/gosty.dir/moc_gosty.cpp.o -MF CMakeFiles/gosty.dir/moc_gosty.cpp.o.d -o CMakeFiles/gosty.dir/moc_gosty.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/moc_gosty.cpp [ 96%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_tool.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_tool.cc.o -MF CMakeFiles/_ost_gui.dir/export_tool.cc.o.d -o CMakeFiles/_ost_gui.dir/export_tool.cc.o -c /<>/modules/gui/pymod/export_tool.cc [ 97%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_py_shell.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_py_shell.cc.o -MF CMakeFiles/_ost_gui.dir/export_py_shell.cc.o.d -o CMakeFiles/_ost_gui.dir/export_py_shell.cc.o -c /<>/modules/gui/pymod/export_py_shell.cc [ 98%] Building CXX object modules/gui/src/CMakeFiles/gosty.dir/qrc_dngr.cpp.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/gui/src/CMakeFiles/gosty.dir/qrc_dngr.cpp.o -MF CMakeFiles/gosty.dir/qrc_dngr.cpp.o.d -o CMakeFiles/gosty.dir/qrc_dngr.cpp.o -c /<>/obj-arm-linux-gnueabihf/modules/gui/src/qrc_dngr.cpp [ 98%] Linking CXX executable ../../../stage/lib/openstructure/libexec/gosty cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/gosty.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro CMakeFiles/gosty.dir/gosty.cc.o CMakeFiles/gosty.dir/moc_gosty.cpp.o CMakeFiles/gosty.dir/qrc_dngr.cpp.o -o ../../../stage/lib/openstructure/libexec/gosty -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_gui.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so.1.83.0 ../../../stage/lib/libost_gfx.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libOpenGL.so /usr/lib/arm-linux-gnueabihf/libGLX.so /usr/lib/arm-linux-gnueabihf/libGLU.so ../../../stage/lib/libost_io.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libtiff.so /usr/lib/arm-linux-gnueabihf/libpng.so /usr/lib/arm-linux-gnueabihf/libz.so ../../../stage/lib/libost_mol_alg.so.2.5.0 ../../../stage/lib/libost_conop.so.2.5.0 ../../../stage/lib/libost_db.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libsqlite3.so ../../../stage/lib/libost_img_alg.so.2.5.0 ../../../stage/lib/libost_img.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so /usr/lib/arm-linux-gnueabihf/libboost_program_options.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_thread.so.1.83.0 ../../../stage/lib/libost_seq_alg.so.2.5.0 ../../../stage/lib/libost_seq.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so.1.83.0 ../../../stage/lib/libost_mol.so.2.5.0 ../../../stage/lib/libost_info.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 ../../../stage/lib/libost_base.so.2.5.0 ../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 98%] Built target gosty [ 98%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_gosty.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_gosty.cc.o -MF CMakeFiles/_ost_gui.dir/export_gosty.cc.o.d -o CMakeFiles/_ost_gui.dir/export_gosty.cc.o -c /<>/modules/gui/pymod/export_gosty.cc [ 98%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_scene_win.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_scene_win.cc.o -MF CMakeFiles/_ost_gui.dir/export_scene_win.cc.o.d -o CMakeFiles/_ost_gui.dir/export_scene_win.cc.o -c /<>/modules/gui/pymod/export_scene_win.cc [ 98%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_sequence_viewer.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_sequence_viewer.cc.o -MF CMakeFiles/_ost_gui.dir/export_sequence_viewer.cc.o.d -o CMakeFiles/_ost_gui.dir/export_sequence_viewer.cc.o -c /<>/modules/gui/pymod/export_sequence_viewer.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/scene_win.hh:23, from /<>/modules/gui/pymod/export_gosty.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/gui/pymod/export_gosty.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_viewer.hh:28, from /<>/modules/gui/pymod/export_gosty.cc:32: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/scene_win.hh:23, from /<>/modules/gui/pymod/export_scene_win.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/gui/pymod/export_scene_win.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_viewer.hh:28, from /<>/modules/gui/pymod/export_sequence_viewer.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/gui/pymod/export_sequence_viewer.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 98%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_perspective.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_perspective.cc.o -MF CMakeFiles/_ost_gui.dir/export_perspective.cc.o.d -o CMakeFiles/_ost_gui.dir/export_perspective.cc.o -c /<>/modules/gui/pymod/export_perspective.cc [ 98%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_sip_handler.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_sip_handler.cc.o -MF CMakeFiles/_ost_gui.dir/export_sip_handler.cc.o.d -o CMakeFiles/_ost_gui.dir/export_sip_handler.cc.o -c /<>/modules/gui/pymod/export_sip_handler.cc [ 98%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_scene_selection.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_scene_selection.cc.o -MF CMakeFiles/_ost_gui.dir/export_scene_selection.cc.o.d -o CMakeFiles/_ost_gui.dir/export_scene_selection.cc.o -c /<>/modules/gui/pymod/export_scene_selection.cc [ 98%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_main_area.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_main_area.cc.o -MF CMakeFiles/_ost_gui.dir/export_main_area.cc.o.d -o CMakeFiles/_ost_gui.dir/export_main_area.cc.o -c /<>/modules/gui/pymod/export_main_area.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_view.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_view_wrapper.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_selection.hh:23, from /<>/modules/gui/pymod/export_scene_selection.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/gui/pymod/export_scene_selection.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 98%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_panels.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_panels.cc.o -MF CMakeFiles/_ost_gui.dir/export_panels.cc.o.d -o CMakeFiles/_ost_gui.dir/export_panels.cc.o -c /<>/modules/gui/pymod/export_panels.cc [ 98%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_menu_bar.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_menu_bar.cc.o -MF CMakeFiles/_ost_gui.dir/export_menu_bar.cc.o.d -o CMakeFiles/_ost_gui.dir/export_menu_bar.cc.o -c /<>/modules/gui/pymod/export_menu_bar.cc [ 98%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_file_loader.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_file_loader.cc.o -MF CMakeFiles/_ost_gui.dir/export_file_loader.cc.o.d -o CMakeFiles/_ost_gui.dir/export_file_loader.cc.o -c /<>/modules/gui/pymod/export_file_loader.cc [100%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_file_viewer.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_file_viewer.cc.o -MF CMakeFiles/_ost_gui.dir/export_file_viewer.cc.o.d -o CMakeFiles/_ost_gui.dir/export_file_viewer.cc.o -c /<>/modules/gui/pymod/export_file_viewer.cc [100%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_widget.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_widget.cc.o -MF CMakeFiles/_ost_gui.dir/export_widget.cc.o.d -o CMakeFiles/_ost_gui.dir/export_widget.cc.o -c /<>/modules/gui/pymod/export_widget.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/file_loader.hh:24, from /<>/modules/gui/pymod/export_file_loader.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/gui/pymod/export_file_loader.cc:19: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/file_loader.hh:30: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [100%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_gl_canvas.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_gl_canvas.cc.o -MF CMakeFiles/_ost_gui.dir/export_gl_canvas.cc.o.d -o CMakeFiles/_ost_gui.dir/export_gl_canvas.cc.o -c /<>/modules/gui/pymod/export_gl_canvas.cc [100%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/data_viewer_proxy.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/data_viewer_proxy.cc.o -MF CMakeFiles/_ost_gui.dir/data_viewer_proxy.cc.o.d -o CMakeFiles/_ost_gui.dir/data_viewer_proxy.cc.o -c /<>/modules/gui/pymod/data_viewer_proxy.cc [100%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_data_viewer.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_data_viewer.cc.o -MF CMakeFiles/_ost_gui.dir/export_data_viewer.cc.o.d -o CMakeFiles/_ost_gui.dir/export_data_viewer.cc.o -c /<>/modules/gui/pymod/export_data_viewer.cc [100%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_overlay.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_overlay.cc.o -MF CMakeFiles/_ost_gui.dir/export_overlay.cc.o.d -o CMakeFiles/_ost_gui.dir/export_overlay.cc.o -c /<>/modules/gui/pymod/export_overlay.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/modules/gui/pymod/data_viewer_proxy.hh:35, from /<>/modules/gui/pymod/data_viewer_proxy.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/gui/pymod/sip_handler.hh:22, from /<>/modules/gui/pymod/data_viewer_proxy.hh:30: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [100%] Building CXX object modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_overlay_manager.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_PYTHON_DYN_LINK -DBOOST_PYTHON_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -D_ost_gui_EXPORTS -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -I/usr/include/python3.12 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -fPIC -MD -MT modules/gui/pymod/CMakeFiles/_ost_gui.dir/export_overlay_manager.cc.o -MF CMakeFiles/_ost_gui.dir/export_overlay_manager.cc.o.d -o CMakeFiles/_ost_gui.dir/export_overlay_manager.cc.o -c /<>/modules/gui/pymod/export_overlay_manager.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/data_viewer.hh:33, from /<>/modules/gui/pymod/export_data_viewer.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/gui/pymod/export_data_viewer.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point_list.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/pointlist_overlay.hh:28, from /<>/modules/gui/pymod/export_overlay.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /usr/include/c++/13/math.h:36, from /usr/include/python3.12/pyport.h:195, from /usr/include/python3.12/Python.h:38, from /usr/include/boost/python/detail/wrap_python.hpp:178, from /usr/include/boost/python/detail/prefix.hpp:13, from /usr/include/boost/python/args.hpp:8, from /usr/include/boost/python.hpp:11, from /<>/modules/gui/pymod/export_overlay.cc:26: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [100%] Linking CXX shared module ../../../stage/lib/python3.12/dist-packages/ost/gui/_ost_gui.so cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/presets.xml /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/scene/presets.xml cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/icons/color_icon.png /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/scene/icons/color_icon.png cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/icons/preset_icon.png /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/scene/icons/preset_icon.png cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/icons/render_icon.png /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/scene/icons/render_icon.png cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E copy_if_different /<>/modules/gui/pymod/scene/icons/tool_icon.png /<>/obj-arm-linux-gnueabihf/stage/share/openstructure/scene/icons/tool_icon.png cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/cmake -E cmake_link_script CMakeFiles/_ost_gui.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro -shared -o ../../../stage/lib/python3.12/dist-packages/ost/gui/_ost_gui.so CMakeFiles/_ost_gui.dir/wrap_gui.cc.o CMakeFiles/_ost_gui.dir/export_alignment_view.cc.o CMakeFiles/_ost_gui.dir/export_message_widget.cc.o CMakeFiles/_ost_gui.dir/export_gl_win.cc.o CMakeFiles/_ost_gui.dir/export_tool.cc.o CMakeFiles/_ost_gui.dir/export_py_shell.cc.o CMakeFiles/_ost_gui.dir/export_gosty.cc.o CMakeFiles/_ost_gui.dir/export_scene_win.cc.o CMakeFiles/_ost_gui.dir/export_sequence_viewer.cc.o CMakeFiles/_ost_gui.dir/export_perspective.cc.o CMakeFiles/_ost_gui.dir/export_sip_handler.cc.o CMakeFiles/_ost_gui.dir/export_scene_selection.cc.o CMakeFiles/_ost_gui.dir/export_main_area.cc.o CMakeFiles/_ost_gui.dir/export_panels.cc.o CMakeFiles/_ost_gui.dir/export_menu_bar.cc.o CMakeFiles/_ost_gui.dir/export_file_loader.cc.o CMakeFiles/_ost_gui.dir/export_file_viewer.cc.o CMakeFiles/_ost_gui.dir/export_widget.cc.o CMakeFiles/_ost_gui.dir/export_gl_canvas.cc.o CMakeFiles/_ost_gui.dir/data_viewer_proxy.cc.o CMakeFiles/_ost_gui.dir/export_data_viewer.cc.o CMakeFiles/_ost_gui.dir/export_overlay.cc.o CMakeFiles/_ost_gui.dir/export_overlay_manager.cc.o -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib: ../../../stage/lib/libost_gui.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libpython3.12.so /usr/lib/arm-linux-gnueabihf/libboost_python312.so.1.83.0 ../../../stage/lib/libost_gfx.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libOpenGL.so /usr/lib/arm-linux-gnueabihf/libGLX.so /usr/lib/arm-linux-gnueabihf/libGLU.so ../../../stage/lib/libost_io.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libtiff.so /usr/lib/arm-linux-gnueabihf/libpng.so /usr/lib/arm-linux-gnueabihf/libz.so ../../../stage/lib/libost_mol_alg.so.2.5.0 ../../../stage/lib/libost_conop.so.2.5.0 ../../../stage/lib/libost_db.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libsqlite3.so ../../../stage/lib/libost_img_alg.so.2.5.0 ../../../stage/lib/libost_img.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so /usr/lib/arm-linux-gnueabihf/libboost_program_options.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_thread.so.1.83.0 ../../../stage/lib/libost_seq_alg.so.2.5.0 ../../../stage/lib/libost_seq.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so.1.83.0 ../../../stage/lib/libost_mol.so.2.5.0 ../../../stage/lib/libost_info.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 ../../../stage/lib/libost_base.so.2.5.0 ../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/__init__.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/__init__.pyc\",\"__init__.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/color_options_widget.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/color_options_widget.pyc\",\"color_options_widget.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/color_select_widget.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/color_select_widget.pyc\",\"color_select_widget.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/combo_options_widget.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/combo_options_widget.pyc\",\"combo_options_widget.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/cpk_widget.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/cpk_widget.pyc\",\"cpk_widget.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/custom_widget.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/custom_widget.pyc\",\"custom_widget.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/gradient_editor_widget.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/gradient_editor_widget.pyc\",\"gradient_editor_widget.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/gradient_info_handler.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/gradient_info_handler.pyc\",\"gradient_info_handler.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/gradient_list_model.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/gradient_list_model.pyc\",\"gradient_list_model.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/gradient_preset_widget.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/gradient_preset_widget.pyc\",\"gradient_preset_widget.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/hsc_widget.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/hsc_widget.pyc\",\"hsc_widget.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/immutable_gradient_info_handler.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/immutable_gradient_info_handler.pyc\",\"immutable_gradient_info_handler.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/immutable_preset_info_handler.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/immutable_preset_info_handler.pyc\",\"immutable_preset_info_handler.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/init_inspector.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/init_inspector.pyc\",\"init_inspector.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/inspector_widget.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/inspector_widget.pyc\",\"inspector_widget.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/map_level_widget.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/map_level_widget.pyc\",\"map_level_widget.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/preset.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/preset.pyc\",\"preset.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/remote.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/remote.pyc\",\"remote.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/preset_editor_list_model.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/preset_editor_list_model.pyc\",\"preset_editor_list_model.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/preset_editor_widget.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/preset_editor_widget.pyc\",\"preset_editor_widget.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/preset_info_handler.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/preset_info_handler.pyc\",\"preset_info_handler.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/preset_list_model.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/preset_list_model.pyc\",\"preset_list_model.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/preset_widget.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/preset_widget.pyc\",\"preset_widget.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/render_mode_widget.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/render_mode_widget.pyc\",\"render_mode_widget.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/render_op.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/render_op.pyc\",\"render_op.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/render_options_widget.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/render_options_widget.pyc\",\"render_options_widget.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/scene_observer_impl.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/scene_observer_impl.pyc\",\"scene_observer_impl.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/scene_selection_helper.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/scene_selection_helper.pyc\",\"scene_selection_helper.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/simple_widget.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/simple_widget.pyc\",\"simple_widget.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/sline_widget.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/sline_widget.pyc\",\"sline_widget.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/toolbar_options_widget.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/toolbar_options_widget.pyc\",\"toolbar_options_widget.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/trace_widget.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/trace_widget.pyc\",\"trace_widget.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/tube_widget.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/tube_widget.pyc\",\"tube_widget.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/uniform_color_widget.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/uniform_color_widget.pyc\",\"uniform_color_widget.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/visibility_op.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/visibility_op.pyc\",\"visibility_op.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/line_trace_widget.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/line_trace_widget.pyc\",\"line_trace_widget.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/wireframe_widget.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/wireframe_widget.pyc\",\"wireframe_widget.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/scene/query_editor.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/scene/query_editor.pyc\",\"query_editor.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/dng/__init__.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/dng/__init__.pyc\",\"__init__.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/dng/termuse.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/dng/termuse.pyc\",\"termuse.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/dng/superpositiondialog.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/dng/superpositiondialog.pyc\",\"superpositiondialog.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/dng/init.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/dng/init.pyc\",\"init.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/dng/menu.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/dng/menu.pyc\",\"menu.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/__init__.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/./__init__.pyc\",\"__init__.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/init_context_menu.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/./init_context_menu.pyc\",\"init_context_menu.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/init_menubar.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/./init_menubar.pyc\",\"init_menubar.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/init_spacenav.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/./init_spacenav.pyc\",\"init_spacenav.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/init_splash.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/./init_splash.pyc\",\"init_splash.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/trajectory_viewer.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/./trajectory_viewer.pyc\",\"trajectory_viewer.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/helpwidget.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/./helpwidget.pyc\",\"helpwidget.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/table.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/./table.pyc\",\"table.py\",doraise=True)" cd /<>/obj-arm-linux-gnueabihf/modules/gui/pymod && /usr/bin/python3 -c "import py_compile;py_compile.compile(\"/<>/modules/gui/pymod/gosty_startup.py\",\"/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/gui/./gosty_startup.pyc\",\"gosty_startup.py\",doraise=True)" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target _ost_gui make -f scripts/CMakeFiles/ost_scripts.dir/build.make scripts/CMakeFiles/ost_scripts.dir/depend make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/scripts /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/scripts /<>/obj-arm-linux-gnueabihf/scripts/CMakeFiles/ost_scripts.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f scripts/CMakeFiles/ost_scripts.dir/build.make scripts/CMakeFiles/ost_scripts.dir/build make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -E copy_if_different ost_config /<>/obj-arm-linux-gnueabihf/stage/lib/openstructure/libexec/ost_config cd /<>/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -E copy_if_different ost /<>/obj-arm-linux-gnueabihf/stage/bin/ost cd /<>/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -E copy_if_different dng /<>/obj-arm-linux-gnueabihf/stage/bin/dng cd /<>/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -E copy_if_different ost_startup.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/ost_startup.py cd /<>/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -E copy_if_different /<>/scripts/dng_startup.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/dng_startup.py make[3]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target ost_scripts make[2]: Leaving directory '/<>/obj-arm-linux-gnueabihf' /usr/bin/cmake -E cmake_progress_start /<>/obj-arm-linux-gnueabihf/CMakeFiles 0 make[1]: Leaving directory '/<>/obj-arm-linux-gnueabihf' dh_auto_test -a cd obj-arm-linux-gnueabihf && make -j4 check ARGS\+=--verbose ARGS\+=-j4 make[1]: Entering directory '/<>/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/<> -B/<>/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 check make[2]: Entering directory '/<>/obj-arm-linux-gnueabihf' /usr/bin/cmake -S/<> -B/<>/obj-arm-linux-gnueabihf --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/obj-arm-linux-gnueabihf/CMakeFiles 91 make -f CMakeFiles/Makefile2 CMakeFiles/check.dir/all make[3]: Entering directory '/<>/obj-arm-linux-gnueabihf' make -f scripts/CMakeFiles/subst_ost_startup.py.dir/build.make scripts/CMakeFiles/subst_ost_startup.py.dir/depend make -f modules/base/src/CMakeFiles/create_stage.dir/build.make modules/base/src/CMakeFiles/create_stage.dir/depend make -f scripts/CMakeFiles/subst_ost_config.dir/build.make scripts/CMakeFiles/subst_ost_config.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make -f scripts/CMakeFiles/subst_ost.dir/build.make scripts/CMakeFiles/subst_ost.dir/depend cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/scripts /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/scripts /<>/obj-arm-linux-gnueabihf/scripts/CMakeFiles/subst_ost_startup.py.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/base/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/base/src /<>/obj-arm-linux-gnueabihf/modules/base/src/CMakeFiles/create_stage.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/scripts /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/scripts /<>/obj-arm-linux-gnueabihf/scripts/CMakeFiles/subst_ost_config.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/scripts /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/scripts /<>/obj-arm-linux-gnueabihf/scripts/CMakeFiles/subst_ost.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f scripts/CMakeFiles/subst_ost_startup.py.dir/build.make scripts/CMakeFiles/subst_ost_startup.py.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -DINPUT_FILE=/<>/scripts/ost_startup.py.in -DOUT_FILE=ost_startup.py -DBUILD_TYPE=Release -DPython_EXECUTABLE=/usr/bin/python3 -DPython_VERSION=3.12.3 -DLIBDIR=lib -DLIBEXEC_PATH=lib/openstructure/libexec -DPYTHON_MODULE_PATH=python3.12/dist-packages/ -P /<>/cmake_support/substitute.cmake make -f scripts/CMakeFiles/subst_ost.dir/build.make scripts/CMakeFiles/subst_ost.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/base/src/CMakeFiles/create_stage.dir/build.make modules/base/src/CMakeFiles/create_stage.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -DINPUT_FILE=/<>/scripts/ost.in -DOUT_FILE=ost -DBUILD_TYPE=Release -DPython_EXECUTABLE=/usr/bin/python3 -DPython_VERSION=3.12.3 -DLIBDIR=lib -DLIBEXEC_PATH=lib/openstructure/libexec -DPYTHON_MODULE_PATH=python3.12/dist-packages/ -P /<>/cmake_support/substitute.cmake make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E make_directory /<>/obj-arm-linux-gnueabihf/stage/lib make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f scripts/CMakeFiles/subst_ost_config.dir/build.make scripts/CMakeFiles/subst_ost_config.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -DINPUT_FILE=/<>/scripts/ost_config.in -DOUT_FILE=ost_config -DBUILD_TYPE=Release -DPython_EXECUTABLE=/usr/bin/python3 -DPython_VERSION=3.12.3 -DLIBDIR=lib -DLIBEXEC_PATH=lib/openstructure/libexec -DPYTHON_MODULE_PATH=python3.12/dist-packages/ -P /<>/cmake_support/substitute.cmake make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E make_directory /<>/obj-arm-linux-gnueabihf/stage/bin [ 0%] Built target subst_ost_startup.py make -f scripts/CMakeFiles/subst_dng.dir/build.make scripts/CMakeFiles/subst_dng.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/scripts /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/scripts /<>/obj-arm-linux-gnueabihf/scripts/CMakeFiles/subst_dng.dir/DependInfo.cmake "--color=" [ 0%] Built target subst_ost make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f scripts/CMakeFiles/subst_dng.dir/build.make scripts/CMakeFiles/subst_dng.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E make_directory /<>/obj-arm-linux-gnueabihf/stage/lib/openstructure/libexec make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -DINPUT_FILE=/<>/scripts/dng.in -DOUT_FILE=dng -DBUILD_TYPE=Release -DPython_EXECUTABLE=/usr/bin/python3 -DPython_VERSION=3.12.3 -DLIBDIR=lib -DLIBEXEC_PATH=lib/openstructure/libexec -DPYTHON_MODULE_PATH=python3.12/dist-packages/ -P /<>/cmake_support/substitute.cmake [ 0%] Built target subst_ost_config cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E make_directory /<>/obj-arm-linux-gnueabihf/tests make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 0%] Built target subst_dng make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 0%] Built target create_stage make -f modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/build.make modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/depend make -f modules/geom/src/CMakeFiles/ost_geom_headers.dir/build.make modules/geom/src/CMakeFiles/ost_geom_headers.dir/depend make -f modules/config/CMakeFiles/ost_config_headers.dir/build.make modules/config/CMakeFiles/ost_config_headers.dir/depend make -f modules/base/src/CMakeFiles/ost_base_headers.dir/build.make modules/base/src/CMakeFiles/ost_base_headers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/seq/alg/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/geom/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/geom/src /<>/obj-arm-linux-gnueabihf/modules/geom/src/CMakeFiles/ost_geom_headers.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/config /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/config /<>/obj-arm-linux-gnueabihf/modules/config/CMakeFiles/ost_config_headers.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/base/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/base/src /<>/obj-arm-linux-gnueabihf/modules/base/src/CMakeFiles/ost_base_headers.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/build.make modules/seq/alg/src/CMakeFiles/ost_seq_alg_headers.dir/build make -f modules/geom/src/CMakeFiles/ost_geom_headers.dir/build.make modules/geom/src/CMakeFiles/ost_geom_headers.dir/build make -f modules/config/CMakeFiles/ost_config_headers.dir/build.make modules/config/CMakeFiles/ost_config_headers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./alignment_opts.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./alignment_opts.hh make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/export_helper/vector.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/export_helper/vector.hh make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/config && /usr/bin/cmake -E copy_if_different /<>/modules/config/./base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./base.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/base/src/CMakeFiles/ost_base_headers.dir/build.make modules/base/src/CMakeFiles/ost_base_headers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/export_helper/generic_property_def.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/export_helper/generic_property_def.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./def.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./def.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./clip_alignment.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./clip_alignment.hh cd /<>/obj-arm-linux-gnueabihf/modules/config && /usr/bin/cmake -E copy_if_different /<>/modules/config/./config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./config.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/export_helper/pair_to_tuple_conv.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/export_helper/pair_to_tuple_conv.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./conservation.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./conservation.hh cd /<>/obj-arm-linux-gnueabihf/modules/config && /usr/bin/cmake -E copy_if_different /<>/modules/config/./dllexport.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./dllexport.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./exc.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./exc.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./contact_prediction_score.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./contact_prediction_score.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/export_helper/vec_to_list_conv.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/export_helper/vec_to_list_conv.hh cd /<>/obj-arm-linux-gnueabihf/modules/config && /usr/bin/cmake -E copy_if_different /<>/modules/config/./version.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./version.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./geom.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./geom.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./mat.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./mat.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/test_utils/compare_files.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/test_utils/compare_files.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./contact_weight_matrix.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./contact_weight_matrix.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./mat2.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./mat2.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./generic_property.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./generic_property.hh [ 0%] Built target ost_config_headers make -f modules/info/src/CMakeFiles/ost_info_headers.dir/build.make modules/info/src/CMakeFiles/ost_info_headers.dir/depend cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./distance_map.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./distance_map.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./mat3.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./mat3.hh make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/info/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/info/src /<>/obj-arm-linux-gnueabihf/modules/info/src/CMakeFiles/ost_info_headers.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./integrity_error.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./integrity_error.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./entropy.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./entropy.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/info/src/CMakeFiles/ost_info_headers.dir/build.make modules/info/src/CMakeFiles/ost_info_headers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./info.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./info.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./mat4.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./mat4.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./invalid_handle.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./invalid_handle.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./global_align.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./global_align.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./vec.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vec.hh cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./info_error.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_error.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./ptr_observer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./ptr_observer.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./ins_del.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./ins_del.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./vec2.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vec2.hh cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./info_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_impl.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./log.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./log.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./vec3.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vec3.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./local_align.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./local_align.hh cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./info_impl_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_impl_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./log_sink.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./log_sink.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./vec4.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vec4.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./merge_pairwise_alignments.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./merge_pairwise_alignments.hh cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./info_handle.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_handle.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./vecmat_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vecmat_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./profile.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./profile.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./module_config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./module_config.hh cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./info_group.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_group.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./vecmat2_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vecmat2_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./dyn_cast.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./dyn_cast.hh cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./info_item.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_item.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./pair_subst_weight_matrix.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./pair_subst_weight_matrix.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./stdint.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./stdint.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./vecmat3_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vecmat3_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./semiglobal_align.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./semiglobal_align.hh cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./info_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./vecmat4_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vecmat4_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./stdint_msc.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./stdint_msc.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./sequence_identity.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./sequence_identity.hh cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./module_config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./module_config.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./sequence_similarity.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./sequence_similarity.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./circular_iterator.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./circular_iterator.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./range.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./range.hh cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./info_path.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_path.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./constants.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./constants.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./subst_weight_matrix.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./subst_weight_matrix.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./module_config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./module_config.hh cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./info_set.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_set.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./variance_map.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./variance_map.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./composite.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./composite.hh cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./info_visitor.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_visitor.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./data/default_contact_weight_matrix.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./default_contact_weight_matrix.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./units.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./units.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./composite2.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./composite2.hh cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./info_verbose_visitor.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./info_verbose_visitor.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./data/default_pair_subst_weight_matrix.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./default_pair_subst_weight_matrix.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./message.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./message.hh cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./item_type.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./item_type.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./composite3.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./composite3.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./hmm_pseudo_counts.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./hmm_pseudo_counts.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./platform.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./platform.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./composite_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./composite_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./geom_info_conversion.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./geom_info_conversion.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/alg/src/./hmm_score.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/./hmm_score.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./string_ref.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./string_ref.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./composite2_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./composite2_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/info/src && /usr/bin/cmake -E copy_if_different /<>/modules/info/src/./item_type_cast.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/info/./item_type_cast.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./composite3_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./composite3_op.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./pod_vector.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./pod_vector.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 0%] Built target ost_seq_alg_headers cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./aligned_cuboid.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./aligned_cuboid.hh make -f modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/build.make modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/mol/base/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/mol/base/src /<>/obj-arm-linux-gnueabihf/modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./fixed_string.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./fixed_string.hh [ 0%] Built target ost_info_headers make -f modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/build.make modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/depend cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./vec_mat_predicates.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./vec_mat_predicates.hh make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/seq/base/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/seq/base/src /<>/obj-arm-linux-gnueabihf/modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/build.make modules/mol/base/src/CMakeFiles/ost_mol_headers.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./tri_matrix.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./tri_matrix.hh make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/pointer_iterator.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/pointer_iterator.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./quat.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./quat.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/build.make modules/seq/base/src/CMakeFiles/ost_seq_headers.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./transform.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./transform.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/atom_group.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/atom_group.hh make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/impl/sequence_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_impl.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./boost_filesystem_helper.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./boost_filesystem_helper.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./point_cloud.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./point_cloud.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/atom_prop.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/atom_prop.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/impl/sequence_impl_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_impl_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/base/src/./paged_array.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/./paged_array.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/src && /usr/bin/cmake -E copy_if_different /<>/modules/geom/src/./module_config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/./module_config.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/atom_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/atom_impl.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/impl/sequence_list_impl_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_impl_fw.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/atom_impl_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/atom_impl_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/impl/sequence_list_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_impl.hh [ 0%] Built target ost_base_headers make -f modules/conop/src/CMakeFiles/ost_conop_headers.dir/build.make modules/conop/src/CMakeFiles/ost_conop_headers.dir/depend cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/chain_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/chain_impl.hh [ 0%] Built target ost_geom_headers make -f modules/db/src/CMakeFiles/ost_db_headers.dir/build.make modules/db/src/CMakeFiles/ost_db_headers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/conop/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/conop/src /<>/obj-arm-linux-gnueabihf/modules/conop/src/CMakeFiles/ost_conop_headers.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/impl/sequence_list_iterator.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/db/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/db/src /<>/obj-arm-linux-gnueabihf/modules/db/src/CMakeFiles/ost_db_headers.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/conop/src/CMakeFiles/ost_conop_headers.dir/build.make modules/conop/src/CMakeFiles/ost_conop_headers.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/chain_impl_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/chain_impl_fw.hh make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /<>/modules/conop/src/./conop.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/./conop.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/db/src/CMakeFiles/ost_db_headers.dir/build.make modules/db/src/CMakeFiles/ost_db_headers.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/./sequence_list.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/./sequence_list.hh make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/cmake -E copy_if_different /<>/modules/db/src/./sqlite_wrap.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/db/./sqlite_wrap.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/connector_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/connector_impl.hh cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /<>/modules/conop/src/./processor.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/./processor.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/./sequence_handle.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/./sequence_handle.hh cd /<>/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/cmake -E copy_if_different /<>/modules/db/src/./sqlite_conv.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/db/./sqlite_conv.hh cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /<>/modules/conop/src/./amino_acids.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/./amino_acids.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/connector_impl_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/connector_impl_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/./alignment_handle.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/./alignment_handle.hh cd /<>/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/cmake -E copy_if_different /<>/modules/db/src/./module_config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/db/./module_config.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/dihedral.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/dihedral.hh cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /<>/modules/conop/src/./diag.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/./diag.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/./module_config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/./module_config.hh cd /<>/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/cmake -E copy_if_different /<>/modules/db/src/./linear_indexer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/db/./linear_indexer.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/entity_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/entity_impl.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/./sequence_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/./sequence_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /<>/modules/conop/src/./model_check.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/./model_check.hh cd /<>/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/cmake -E copy_if_different /<>/modules/db/src/./binary_container.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/db/./binary_container.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/entity_impl_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/entity_impl_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /<>/modules/conop/src/./heuristic.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/./heuristic.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/./aligned_region.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/./aligned_region.hh cd /<>/obj-arm-linux-gnueabihf/modules/db/src && /usr/bin/cmake -E copy_if_different /<>/modules/db/src/./extract_data_helper.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/db/./extract_data_helper.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/fragment_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/fragment_impl.hh cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /<>/modules/conop/src/./compound.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/./compound.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/./aligned_column.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/./aligned_column.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /<>/modules/conop/src/./compound_lib.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/./compound_lib.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/./aligned_column_iterator.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/./aligned_column_iterator.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/fragment_impl_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/fragment_impl_fw.hh [ 0%] Built target ost_db_headers make -f modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/build.make modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/depend cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /<>/modules/conop/src/./module_config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/./module_config.hh make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/./invalid_sequence.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/./invalid_sequence.hh cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/gfx/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/gfx/src /<>/obj-arm-linux-gnueabihf/modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/query_ast.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/query_ast.hh cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /<>/modules/conop/src/./rule_based.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/./rule_based.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/./views_from_sequences.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/./views_from_sequences.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/build.make modules/gfx/src/CMakeFiles/ost_gfx_headers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/map_iso_gen.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/map_iso_gen.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/query_ast_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/query_ast_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /<>/modules/conop/src/./minimal_compound_lib.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/./minimal_compound_lib.hh cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/seq/base/src/./profile_handle.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/./profile_handle.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/query_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/query_impl.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/map_iso_gen_s.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/map_iso_gen_s.hh cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /<>/modules/conop/src/./compound_lib_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/./compound_lib_base.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/query_impl_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/query_impl_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/conop/src && /usr/bin/cmake -E copy_if_different /<>/modules/conop/src/./ring_finder.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/./ring_finder.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/map_iso_gen_s.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/map_iso_gen_s.hh [ 0%] Built target ost_seq_headers make -f modules/img/base/src/CMakeFiles/ost_img_headers.dir/build.make modules/img/base/src/CMakeFiles/ost_img_headers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/img/base/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/img/base/src /<>/obj-arm-linux-gnueabihf/modules/img/base/src/CMakeFiles/ost_img_headers.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/residue_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/residue_impl.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/map_iso_spec.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/map_iso_spec.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/img/base/src/CMakeFiles/ost_img_headers.dir/build.make modules/img/base/src/CMakeFiles/ost_img_headers.dir/build [ 0%] Built target ost_conop_headers make -f modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/build.make modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/depend cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/residue_impl_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/residue_impl_fw.hh make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/img/alg/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/img/alg/src /<>/obj-arm-linux-gnueabihf/modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/raster_image/raster_image.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/raster_image/raster_image.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/map_octree.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/map_octree.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/surface_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/surface_impl.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/build.make modules/img/alg/src/CMakeFiles/ost_img_alg_headers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./anisotropic.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./anisotropic.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/dispatch.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/dispatch.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/octree_isocont.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/octree_isocont.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/surface_impl_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/surface_impl_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./auto_correlate.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./auto_correlate.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/image_state.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/cartoon_renderer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/cartoon_renderer.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/torsion_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/torsion_impl.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./clear.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./clear.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/image_state_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/custom_renderer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/custom_renderer.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/impl/torsion_impl_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/impl/torsion_impl_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/image_state_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./clip_min_max.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./clip_min_max.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/cpk_renderer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/cpk_renderer.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./atom_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./atom_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/image_state_base_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_base_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./conjugate.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./conjugate.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/debug_renderer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/debug_renderer.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./atom_handle.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./atom_handle.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/image_state_def.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./convolute.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./convolute.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./atom_view.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./atom_view.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/simple_renderer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/simple_renderer.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./correlate.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./correlate.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/image_state_factory.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_factory.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/sline_renderer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/sline_renderer.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./bond_handle.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./bond_handle.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./cross_correlate.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./cross_correlate.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/trace_renderer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/trace_renderer.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/image_state_frequency_domain.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_frequency_domain.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./bond_table.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./bond_table.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./density_slice.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./density_slice.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/line_trace_renderer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/line_trace_renderer.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./chain_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./chain_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/image_state_half_frequency_domain.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_half_frequency_domain.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/backbone_trace.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/backbone_trace.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./dft.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./dft.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/image_state_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./chain_handle.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./chain_handle.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/entity_detail.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_detail.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./fft.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./fft.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./chain_view.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./chain_view.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/entity_renderer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_renderer.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/image_state_spatial_domain.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_spatial_domain.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./fftw_helper.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./fftw_helper.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/trace_renderer_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/trace_renderer_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./chain_type.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./chain_type.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./fill.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./fill.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/image_state_visitor.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_visitor.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/connect_renderer_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/connect_renderer_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./chem_class.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./chem_class.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./filter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./filter.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/image_state_algorithm.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_algorithm.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/mapped_property.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/mapped_property.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./fourier_filters.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./fourier_filters.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./chem_type.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./chem_type.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/entity_renderer_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/entity_renderer_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/image_state_visitor_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_visitor_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./gaussian_gradient_magnitude.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./gaussian_gradient_magnitude.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/tabulated_trig.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/tabulated_trig.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/index.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/index.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./coord_group.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./coord_group.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/impl/fast_spheres.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/fast_spheres.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/type_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/type_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./gaussian.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./gaussian.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./coord_source.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./coord_source.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/render_options/render_options.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/render_options.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./gaussian_laplacian.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./gaussian_laplacian.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/image_state/value_holder.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/value_holder.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./in_mem_coord_source.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./in_mem_coord_source.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./highest_peak_search_3d.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./highest_peak_search_3d.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/render_options/line_render_options.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/line_render_options.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./algorithm.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./algorithm.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./coord_frame.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./coord_frame.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./histogram.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./histogram.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/render_options/custom_render_options.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/custom_render_options.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./circle_mask.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./circle_mask.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./editor_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./editor_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/render_options/cpk_render_options.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/cpk_render_options.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./line_iterator.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./line_iterator.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./composite_mask.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./composite_mask.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./editor_type_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./editor_type_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/render_options/simple_render_options.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/simple_render_options.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./local_sigma_threshold.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./local_sigma_threshold.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./data_algorithm.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./data_algorithm.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./mol.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./mol.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/render_options/sline_render_options.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/sline_render_options.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./mask_image.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./mask_image.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./data_observer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./data_observer.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/render_options/line_trace_render_options.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/line_trace_render_options.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./entity_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./negate.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./negate.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/render_options/cartoon_render_options.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/cartoon_render_options.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./data_types.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./data_types.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./entity_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/render_options/trace_render_options.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/render_options/trace_render_options.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./data.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./data.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./normalizer_factory.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./normalizer_factory.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./entity_handle.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_handle.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/color_ops/color_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/color_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./debug.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./debug.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./norm.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./norm.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./entity_observer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_observer.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/color_ops/by_element_color_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/by_element_color_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./dllexport.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./dllexport.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./normalizer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./normalizer.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./entity_observer_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_observer_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/color_ops/by_chain_color_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/by_chain_color_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./extent_iterator.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./extent_iterator.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./entity_property_mapper.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_property_mapper.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./norm_linear.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./norm_linear.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/color_ops/uniform_color_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/uniform_color_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./entity_view.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_view.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./extent_mask.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./extent_mask.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/color_ops/gradient_color_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/gradient_color_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./norm_log.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./norm_log.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./entity_visitor.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_visitor.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./extent.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./extent.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/color_ops/entity_view_color_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/entity_view_color_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./norm_od.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./norm_od.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./entity_visitor_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./entity_visitor_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./image_factory.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_factory.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./power_spectrum.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./power_spectrum.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/color_ops/basic_gradient_color_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/basic_gradient_color_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./handle_type_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./handle_type_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./image_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/color_ops/gradient_level_color_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/gradient_level_color_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./randomize.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./randomize.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./ics_editor.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./ics_editor.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./image_handle_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_handle_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/color_ops/map_handle_color_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color_ops/map_handle_color_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./smooth_mask_image.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./smooth_mask_image.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./not_connected_error.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./not_connected_error.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./render_pass.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./render_pass.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./image_handle.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_handle.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./stat.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./stat.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./property_id.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./property_id.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./bitmap_io.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./bitmap_io.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./stat_accumulator.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./stat_accumulator.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./image_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_impl.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./query.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./query.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./collada_exporter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./collada_exporter.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./stat_min_max.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./stat_min_max.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./image_list.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_list.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./threshold.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./threshold.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./color.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./color.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./query_error.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./query_error.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./image_state_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_state_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./entity.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./entity.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./transcendentals.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./transcendentals.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./query_state.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./query_state.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./image_state.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./image_state.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./transform.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./transform.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./entity_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./entity_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./image.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./image.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./residue_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./residue_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./transform_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./transform_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gl_helper.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gl_helper.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./inverted_mask.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./inverted_mask.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./residue_handle.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./residue_handle.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./alg_transform.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./alg_transform.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gfx.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./residue_prop.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./residue_prop.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./map.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./map.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gfx_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./alg_mirror.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./alg_mirror.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./mask_base_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./mask_base_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./residue_view.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./residue_view.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gfx_node.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_node.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./alg_shift.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./alg_shift.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./mask_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./mask_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./sec_structure.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./sec_structure.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gfx_node_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_node_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./mask_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./mask_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./discrete_shrink.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./discrete_shrink.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./spatial_organizer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./spatial_organizer.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gfx_node_visitor.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_node_visitor.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./mask_visitor.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./mask_visitor.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./transformation_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./transformation_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./surface.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./surface.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gfx_object_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_object_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./mask.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./mask.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gfx_object.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_object.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./transformations.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./transformations.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./surface_builder.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./surface_builder.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gfx_object_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_object_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./fractional_shift.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./fractional_shift.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./module_config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./module_config.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./module_config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./module_config.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gfx_prim.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_prim.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./builder.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./builder.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./normalizer_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./normalizer_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./polar.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./polar.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./surface_handle.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./surface_handle.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./normalizer_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./normalizer_impl.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./symmetry_node.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./symmetry_node.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./line_average.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./line_average.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./surface_prop.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./surface_prop.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./null_data.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./null_data.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gfx_test_object.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gfx_test_object.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/alg/src/./rscrosscorr.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/./rscrosscorr.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./observable.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./observable.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./torsion_handle.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./torsion_handle.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./glwin_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./glwin_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./paste_impl.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./paste_impl.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./transfer_connectivity.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./transfer_connectivity.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./input.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./input.hh [ 0%] Built target ost_img_alg_headers cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./peak.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./peak.hh make -f modules/gui/src/CMakeFiles/ost_gui_headers.dir/build.make modules/gui/src/CMakeFiles/ost_gui_headers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/gui/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/gui/src /<>/obj-arm-linux-gnueabihf/modules/gui/src/CMakeFiles/ost_gui_headers.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./prim_list.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./prim_list.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./query_view_wrapper.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./query_view_wrapper.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./phase.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./phase.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/gui/src/CMakeFiles/ost_gui_headers.dir/build.make modules/gui/src/CMakeFiles/ost_gui_headers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/tools/tool.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./scene.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./scene.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./physical_units.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./physical_units.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./view_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./view_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./selection.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./selection.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/tools/tool_option_group.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_option_group.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./view_type_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./view_type_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./pixel_sampling.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./pixel_sampling.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./surface.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./surface.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/tools/tool_options.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_options.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./view_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./view_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./point_list.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./point_list.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./texture.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./texture.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/tools/tool_bar.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_bar.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./xcs_editor.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./xcs_editor.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./point.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./point.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./vertex_array.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./vertex_array.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./polygon_mask.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./polygon_mask.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./bounding_box.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./bounding_box.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./vertex_array_helper.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./vertex_array_helper.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/tools/selection_tool.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/selection_tool.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./progress.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./progress.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./scene_observer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./scene_observer.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./transform.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./transform.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/tools/measure_tool.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/measure_tool.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gl_include.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gl_include.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/base/src/./module_config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/./module_config.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./size.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./size.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/tools/tool_option.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_option.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./spherical_mask.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./spherical_mask.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./glext_include.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./glext_include.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/tools/tool_manager.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_manager.hh [ 0%] Built target ost_mol_headers cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./util.cc /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./util.cc make -f modules/io/src/CMakeFiles/ost_io_headers.dir/build.make modules/io/src/CMakeFiles/ost_io_headers.dir/depend cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./render_mode.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./render_mode.hh make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/io/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/io/src /<>/obj-arm-linux-gnueabihf/modules/io/src/CMakeFiles/ost_io_headers.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/tools/tool_options_widget.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_options_widget.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./util.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./util.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./material.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./material.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/io/src/CMakeFiles/ost_io_headers.dir/build.make modules/io/src/CMakeFiles/ost_io_headers.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/tools/manipulator.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/manipulator.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/chemdict_parser.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/chemdict_parser.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gradient.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gradient.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./value_util.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./value_util.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/tools/tool_options_win.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/tool_options_win.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/star_parser.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/star_parser.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gradient_manager.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gradient_manager.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./vecmat.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./vecmat.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/tools/mouse_event.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/mouse_event.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./module_config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./module_config.hh cd /<>/obj-arm-linux-gnueabihf/modules/img/base/src && /usr/bin/cmake -E copy_if_different /<>/modules/img/base/src/./mask_info_convert.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/./mask_info_convert.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/mmcif_reader.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/mmcif_reader.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/tools/map_tool.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/tools/map_tool.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./primitives.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./primitives.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/mmcif_info.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/mmcif_info.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/align_properties_painter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/align_properties_painter.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./povray_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./povray_fw.hh [ 0%] Built target ost_img_headers make -f modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/build.make modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/mol/alg/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/io_profile.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/io_profile.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./povray.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./povray.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/base_row.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/base_row.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/dcd_io.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/dcd_io.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/build.make modules/mol/alg/src/CMakeFiles/ost_mol_alg_headers.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/background_painter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/background_painter.hh make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./svd_superpose.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./svd_superpose.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./exporter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./exporter.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/entity_io_crd_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/entity_io_crd_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/conservation_painter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/conservation_painter.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./module_config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./module_config.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./exporter_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./exporter_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/entity_io_pqr_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/entity_io_pqr_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./sec_structure_segments.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./sec_structure_segments.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/painter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/painter.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./gost_exporter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./gost_exporter.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/entity_io_mae_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/entity_io_mae_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/secstr_row.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/secstr_row.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./local_dist_diff_test.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./local_dist_diff_test.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./color_ops/map_handle_color_op.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./map_handle_color_op.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./distance_test_common.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./distance_test_common.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/entity_io_mmcif_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/entity_io_mmcif_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/seq_secstr_painter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/seq_secstr_painter.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./map_iso.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./map_iso.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./distance_rmsd_test.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./distance_rmsd_test.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/entity_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/entity_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/seq_selection_painter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/seq_selection_painter.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./map_slab.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./map_slab.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./superpose_frames.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./superpose_frames.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/pdb_reader.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/pdb_reader.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/seq_text_painter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/seq_text_painter.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./filter_clashes.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./filter_clashes.hh cd /<>/obj-arm-linux-gnueabihf/modules/gfx/src && /usr/bin/cmake -E copy_if_different /<>/modules/gfx/src/./map_iso_prop.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/./map_iso_prop.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/entity_io_pdb_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/entity_io_pdb_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/sequence_delegate.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_delegate.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./construct_cbeta.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./construct_cbeta.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/pdb_writer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/pdb_writer.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/sequence_model.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_model.hh [ 0%] Built target ost_gfx_headers make -f modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/build.make modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/depend cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./clash_score.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./clash_score.hh make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/bindings/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/bindings/src /<>/obj-arm-linux-gnueabihf/modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/entity_io_sdf_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/entity_io_sdf_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/sequence_row.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_row.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/build.make modules/bindings/src/CMakeFiles/ost_bindings_headers.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./trajectory_analysis.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./trajectory_analysis.hh make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/bindings/src && /usr/bin/cmake -E copy_if_different /<>/modules/bindings/src/./wrap_tmalign.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/bindings/./wrap_tmalign.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./structure_analysis.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./structure_analysis.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/sequence_search_bar.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_search_bar.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/sdf_reader.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/sdf_reader.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/sequence_table_view.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_table_view.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./consistency_checks.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./consistency_checks.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/sdf_writer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/sdf_writer.hh [ 0%] Built target ost_bindings_headers make -f modules/config/CMakeFiles/ost_config.dir/build.make modules/config/CMakeFiles/ost_config.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/config /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/config /<>/obj-arm-linux-gnueabihf/modules/config/CMakeFiles/ost_config.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/sequence_viewer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_viewer.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/save_entity.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/save_entity.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./pdbize.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./pdbize.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/tick_painter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/tick_painter.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/load_entity.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/load_entity.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/config/CMakeFiles/ost_config.dir/build.make modules/config/CMakeFiles/ost_config.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./adjacency_bitmap.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./adjacency_bitmap.hh make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/config/CMakeFiles/ost_config.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/surface_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/surface_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./consistency_checks.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./consistency_checks.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/title_row.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/title_row.hh [ 0%] Built target ost_config make -f modules/geom/src/CMakeFiles/ost_geom.dir/build.make modules/geom/src/CMakeFiles/ost_geom.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/load_surface.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/load_surface.hh cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/geom/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/geom/src /<>/obj-arm-linux-gnueabihf/modules/geom/src/CMakeFiles/ost_geom.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./contact_overlap.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./contact_overlap.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/alignment_view_object.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/alignment_view_object.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/surface_io_msms_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/surface_io_msms_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./domain_find.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./domain_find.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/base_view_object.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/base_view_object.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./similarity_matrix.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./similarity_matrix.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/pdb_str.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/pdb_str.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/sequence_viewer/sequence_view_object.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/sequence_viewer/sequence_view_object.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./accessibility.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./accessibility.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/sdf_str.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/sdf_str.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/main_thread_runner.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/main_thread_runner.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./sec_struct.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./sec_struct.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/mmcif_str.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/mmcif_str.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/output_redirector.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/output_redirector.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./nonstandard.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./nonstandard.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/stereochemical_params_reader.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/stereochemical_params_reader.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/completer_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/completer_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./molck.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./molck.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/mol/omf.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/omf.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/dir_model.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/dir_model.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/load_map.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/load_map.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./find_membrane.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./find_membrane.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/gutter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/gutter.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/geom/src/CMakeFiles/ost_geom.dir/build.make modules/geom/src/CMakeFiles/ost_geom.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/map_io_df3_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_df3_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src && /usr/bin/cmake -E copy_if_different /<>/modules/mol/alg/src/./entity_to_density.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/./entity_to_density.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/image_format.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/image_format.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/path_completer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/path_completer.hh make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/geom/src/CMakeFiles/ost_geom.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/python_context_parser.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_context_parser.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/map_io_dx_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_dx_handler.hh [ 2%] Built target ost_geom [ 2%] Built target ost_mol_alg_headers make -f modules/base/src/CMakeFiles/ost_base.dir/build.make modules/base/src/CMakeFiles/ost_base.dir/depend make -f modules/geom/pymod/CMakeFiles/_ost_geom.dir/build.make modules/geom/pymod/CMakeFiles/_ost_geom.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/base/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/base/src /<>/obj-arm-linux-gnueabihf/modules/base/src/CMakeFiles/ost_base.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/geom/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/geom/pymod /<>/obj-arm-linux-gnueabihf/modules/geom/pymod/CMakeFiles/_ost_geom.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/python_completer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_completer.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/map_io_spi_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_spi_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/python_shell.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_shell.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/map_io_situs_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_situs_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/python_shell_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_shell_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/map_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/python_shell_widget.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_shell_widget.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/map_io_mrc_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_mrc_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/python_tokenizer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_tokenizer.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/map_io_dat_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_dat_handler.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/base/src/CMakeFiles/ost_base.dir/build.make modules/base/src/CMakeFiles/ost_base.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/python_syntax_highlighter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_syntax_highlighter.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/map_io_ipl_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_ipl_handler.hh make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/base/src/CMakeFiles/ost_base.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/text_logger.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/text_logger.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/map_io_jpk_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_jpk_handler.hh [ 3%] Built target ost_base make -f modules/geom/tests/CMakeFiles/ost_geom_tests.dir/build.make modules/geom/tests/CMakeFiles/ost_geom_tests.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/geom/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/geom/tests /<>/obj-arm-linux-gnueabihf/modules/geom/tests/CMakeFiles/ost_geom_tests.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/python_interpreter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/map_io_nanoscope_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_nanoscope_handler.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/geom/tests/CMakeFiles/ost_geom_tests.dir/build.make modules/geom/tests/CMakeFiles/ost_geom_tests.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/python_interpreter_worker.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_interpreter_worker.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/map_io_png_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_png_handler.hh [ 3%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_composite3.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -MD -MT modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_composite3.cc.o -MF CMakeFiles/ost_geom_tests.dir/test_composite3.cc.o.d -o CMakeFiles/ost_geom_tests.dir/test_composite3.cc.o -c /<>/modules/geom/tests/test_composite3.cc cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/python_shell_text_document_layout.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/python_shell_text_document_layout.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/map_io_dm3_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_dm3_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/shell_history.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/shell_history.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/map_io_tiff_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/map_io_tiff_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/state_machine.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/state_machine.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/tiff_util.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/tiff_util.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/state.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/state.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/img/jpk_util.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/jpk_util.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/transition.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/transition.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/seq/sequence_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/python_shell/transition_guard.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/python_shell/transition_guard.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/seq/fasta_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/fasta_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/panels/button_bar.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/button_bar.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/seq/pir_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/pir_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/seq/promod_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/promod_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/panels/drop_box.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/drop_box.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/geom/pymod/CMakeFiles/_ost_geom.dir/build.make modules/geom/pymod/CMakeFiles/_ost_geom.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/panels/panel_bar.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/panel_bar.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/seq/profile_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/profile_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/panels/panel_manager.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/panel_manager.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/seq/hhm_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/hhm_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/panels/bottom_bar.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/bottom_bar.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/seq/pssm_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/pssm_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/panels/button_box.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/button_box.hh make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/geom/pymod/CMakeFiles/_ost_geom.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/seq/clustal_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/clustal_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/panels/event_button.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/event_button.hh [ 4%] Built target _ost_geom make -f modules/info/src/CMakeFiles/ost_info.dir/build.make modules/info/src/CMakeFiles/ost_info.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/info/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/info/src /<>/obj-arm-linux-gnueabihf/modules/info/src/CMakeFiles/ost_info.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/seq/load.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/load.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/panels/panel_widget_container.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/panel_widget_container.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/seq/save.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/save.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/panels/panel_bar_widget_holder.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/panel_bar_widget_holder.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./binary_data_sink.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./binary_data_sink.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/panels/side_bar.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/side_bar.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./io_manager.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./io_manager.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/panels/splitter_panel_bar.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/splitter_panel_bar.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./binary_data_source.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./binary_data_source.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./module_config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./module_config.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/panels/tabbed_panel_bar.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/panels/tabbed_panel_bar.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./container_serialization.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./container_serialization.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/scene_win/context_menu.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/context_menu.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/scene_win/current_selection_node.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/current_selection_node.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./swap_util.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./swap_util.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/info/src/CMakeFiles/ost_info.dir/build.make modules/info/src/CMakeFiles/ost_info.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/scene_win/custom_part_node.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/custom_part_node.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./io_utils.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./io_utils.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/scene_win/entity_node.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/entity_node.hh make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/info/src/CMakeFiles/ost_info.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./io_exception.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./io_exception.hh [ 5%] Built target ost_info make -f modules/base/pymod/CMakeFiles/_ost_base.dir/build.make modules/base/pymod/CMakeFiles/_ost_base.dir/depend cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/scene_win/entity_part_node.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/entity_part_node.hh make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/base/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/base/pymod /<>/obj-arm-linux-gnueabihf/modules/base/pymod/CMakeFiles/_ost_base.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./convert.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./convert.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/scene_win/gfx_scene_node.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/gfx_scene_node.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./converting_streams.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./converting_streams.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/scene_win/label_node.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/label_node.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./formatted_line.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./formatted_line.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/scene_win/root_node.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/root_node.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/chemdict_parser.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./chemdict_parser.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/scene_win/render_mode_node.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/render_mode_node.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/star_parser.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./star_parser.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/mmcif_reader.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./mmcif_reader.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/scene_win/render_modes_node.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/render_modes_node.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/base/pymod/CMakeFiles/_ost_base.dir/build.make modules/base/pymod/CMakeFiles/_ost_base.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/scene_win/scene_node.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/scene_node.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/mmcif_info.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./mmcif_info.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/scene_win/scene_win.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/scene_win.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/io_profile.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./io_profile.hh make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/base/pymod/CMakeFiles/_ost_base.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/scene_win/scene_win_model.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/scene_win/scene_win_model.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/dcd_io.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./dcd_io.hh [ 5%] Built target _ost_base make -f modules/img/base/src/CMakeFiles/ost_img.dir/build.make modules/img/base/src/CMakeFiles/ost_img.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/img/base/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/img/base/src /<>/obj-arm-linux-gnueabihf/modules/img/base/src/CMakeFiles/ost_img.dir/DependInfo.cmake "--color=" cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/messages/message_widget.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/messages/message_widget.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/entity_io_crd_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./entity_io_crd_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/messages/message_box_widget.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/messages/message_box_widget.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/entity_io_pqr_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./entity_io_pqr_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/messages/log_reader.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/messages/log_reader.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/entity_io_mae_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./entity_io_mae_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/argand.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/argand.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/entity_io_mmcif_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./entity_io_mmcif_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/data_viewer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/data_viewer.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/entity_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./entity_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/data_viewer_panel.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/data_viewer_panel.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/data_viewer_panel_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/data_viewer_panel_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/pdb_reader.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./pdb_reader.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/draw_overlay.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/draw_overlay.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/entity_io_pdb_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./entity_io_pdb_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/drawing_functions.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/drawing_functions.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/pdb_writer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./pdb_writer.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/fft_panel.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/fft_panel.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/entity_io_sdf_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./entity_io_sdf_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/info_panel.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/info_panel.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/sdf_reader.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./sdf_reader.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/img2qt.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/img2qt.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/sdf_writer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./sdf_writer.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/mask_overlay.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/mask_overlay.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/save_entity.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./save_entity.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/null_overlay.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/null_overlay.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/load_entity.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./load_entity.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/overlay.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/overlay.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/overlay_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/overlay_base.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/surface_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./surface_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/overlay_base_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/overlay_base_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/load_surface.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./load_surface.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/overlay_manager.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/overlay_manager.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/surface_io_msms_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./surface_io_msms_handler.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/img/base/src/CMakeFiles/ost_img.dir/build.make modules/img/base/src/CMakeFiles/ost_img.dir/build cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/overlay_manager_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/overlay_manager_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/pdb_str.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./pdb_str.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/sdf_str.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./sdf_str.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/overlay_manager_gui.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/overlay_manager_gui.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/mmcif_str.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./mmcif_str.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/overlay_manager_observer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/overlay_manager_observer.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/stereochemical_params_reader.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./stereochemical_params_reader.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/pointlist_overlay.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/pointlist_overlay.hh make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/img/base/src/CMakeFiles/ost_img.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./mol/omf.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./omf.hh [ 8%] Built target ost_img cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/pointlist_overlay_base.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/pointlist_overlay_base.hh [ 8%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_composite2.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/strategies.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/strategies.hh cd /<>/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -MD -MT modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_composite2.cc.o -MF CMakeFiles/ost_geom_tests.dir/test_composite2.cc.o.d -o CMakeFiles/ost_geom_tests.dir/test_composite2.cc.o -c /<>/modules/geom/tests/test_composite2.cc cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./seq/sequence_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./sequence_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./seq/fasta_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./fasta_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/strategies_fw.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/strategies_fw.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./seq/pir_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./pir_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/data_viewer/viewer_normalizer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/data_viewer/viewer_normalizer.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./file_browser.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./file_browser.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./seq/promod_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./promod_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./file_type_dialog.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./file_type_dialog.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./seq/profile_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./profile_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./file_viewer.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./file_viewer.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./seq/hhm_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./hhm_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./gl_canvas.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./gl_canvas.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./seq/pssm_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./pssm_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./gl_win.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./gl_win.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./seq/clustal_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./clustal_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./scene_menu.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./scene_menu.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./seq/load.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./load.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./gosty_app.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./gosty_app.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./seq/save.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./save.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./admin.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./admin.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/load_map.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./load_map.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./module_config.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./module_config.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/map_io_df3_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_df3_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/image_format.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./image_format.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./main.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./main.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./main_area.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./main_area.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/map_io_dx_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_dx_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/map_io_spi_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_spi_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./perspective.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./perspective.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/map_io_situs_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_situs_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./scene_selection.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./scene_selection.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/map_io_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./main_window.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./main_window.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/map_io_mrc_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_mrc_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./dock_widget.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./dock_widget.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/map_io_dat_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_dat_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./dock_widget.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./dock_widget.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/map_io_ipl_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_ipl_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./thin_splitter.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./thin_splitter.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/map_io_jpk_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_jpk_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./widget.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./widget.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/map_io_nanoscope_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_nanoscope_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/map_io_png_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_png_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./widget_geom_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./widget_geom_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/map_io_dm3_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_dm3_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./widget_pool.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./widget_pool.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/map_io_tiff_handler.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./map_io_tiff_handler.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./widget_registry.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./widget_registry.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/tiff_util.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./tiff_util.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./widget_state_saver.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./widget_state_saver.hh cd /<>/obj-arm-linux-gnueabihf/modules/io/src && /usr/bin/cmake -E copy_if_different /<>/modules/io/src/./img/jpk_util.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/./jpk_util.hh cd /<>/obj-arm-linux-gnueabihf/modules/gui/src && /usr/bin/cmake -E copy_if_different /<>/modules/gui/src/./file_loader.hh /<>/obj-arm-linux-gnueabihf/stage/include/ost/gui/./file_loader.hh make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 8%] Built target ost_io_headers make -f modules/mol/base/src/CMakeFiles/ost_mol.dir/build.make modules/mol/base/src/CMakeFiles/ost_mol.dir/depend [ 8%] Built target ost_gui_headers make -f modules/info/pymod/CMakeFiles/_ost_info.dir/build.make modules/info/pymod/CMakeFiles/_ost_info.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/mol/base/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/mol/base/src /<>/obj-arm-linux-gnueabihf/modules/mol/base/src/CMakeFiles/ost_mol.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/info/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/info/pymod /<>/obj-arm-linux-gnueabihf/modules/info/pymod/CMakeFiles/_ost_info.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/info/pymod/CMakeFiles/_ost_info.dir/build.make modules/info/pymod/CMakeFiles/_ost_info.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/info/pymod/CMakeFiles/_ost_info.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 8%] Built target _ost_info make -f modules/img/alg/src/CMakeFiles/ost_img_alg.dir/build.make modules/img/alg/src/CMakeFiles/ost_img_alg.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/img/alg/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/img/alg/src /<>/obj-arm-linux-gnueabihf/modules/img/alg/src/CMakeFiles/ost_img_alg.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/img/alg/src/CMakeFiles/ost_img_alg.dir/build.make modules/img/alg/src/CMakeFiles/ost_img_alg.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/mol/base/src/CMakeFiles/ost_mol.dir/build.make modules/mol/base/src/CMakeFiles/ost_mol.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/img/alg/src/CMakeFiles/ost_img_alg.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 13%] Built target ost_img_alg make -f modules/img/base/pymod/CMakeFiles/_ost_img.dir/build.make modules/img/base/pymod/CMakeFiles/_ost_img.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/img/base/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/img/base/pymod /<>/obj-arm-linux-gnueabihf/modules/img/base/pymod/CMakeFiles/_ost_img.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/mol/base/src/CMakeFiles/ost_mol.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 18%] Built target ost_mol make -f modules/img/base/tests/CMakeFiles/ost_img_tests.dir/build.make modules/img/base/tests/CMakeFiles/ost_img_tests.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/img/base/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/img/base/tests /<>/obj-arm-linux-gnueabihf/modules/img/base/tests/CMakeFiles/ost_img_tests.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/img/base/tests/CMakeFiles/ost_img_tests.dir/build.make modules/img/base/tests/CMakeFiles/ost_img_tests.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 18%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_data.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_data.cc.o -MF CMakeFiles/ost_img_tests.dir/test_data.cc.o.d -o CMakeFiles/ost_img_tests.dir/test_data.cc.o -c /<>/modules/img/base/tests/test_data.cc make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/img/base/pymod/CMakeFiles/_ost_img.dir/build.make modules/img/base/pymod/CMakeFiles/_ost_img.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/img/base/pymod/CMakeFiles/_ost_img.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 20%] Built target _ost_img make -f modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/build.make modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/img/alg/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/img/alg/tests /<>/obj-arm-linux-gnueabihf/modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/build.make modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 20%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_clear.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_clear.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_clear.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_clear.cc.o -c /<>/modules/img/alg/tests/test_clear.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/geom/tests/test_composite3.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/modules/geom/tests/test_composite3.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/geom/tests/test_composite2.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/modules/img/base/tests/test_data.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/img/base/tests/test_data.hh:29, from /<>/modules/img/base/tests/test_data.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/modules/img/alg/tests/test_clear.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/img/alg/tests/test_clear.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 20%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_extent.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_extent.cc.o -MF CMakeFiles/ost_img_tests.dir/test_extent.cc.o.d -o CMakeFiles/ost_img_tests.dir/test_extent.cc.o -c /<>/modules/img/base/tests/test_extent.cc [ 20%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_conj.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_conj.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_conj.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_conj.cc.o -c /<>/modules/img/alg/tests/test_conj.cc [ 20%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_mat2.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -MD -MT modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_mat2.cc.o -MF CMakeFiles/ost_geom_tests.dir/test_mat2.cc.o.d -o CMakeFiles/ost_geom_tests.dir/test_mat2.cc.o -c /<>/modules/geom/tests/test_mat2.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /<>/modules/img/base/tests/test_extent.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/img/base/tests/test_extent.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/geom/tests/test_mat2.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/modules/img/alg/tests/test_conj.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/img/alg/tests/test_conj.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 20%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_mat3.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -MD -MT modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_mat3.cc.o -MF CMakeFiles/ost_geom_tests.dir/test_mat3.cc.o.d -o CMakeFiles/ost_geom_tests.dir/test_mat3.cc.o -c /<>/modules/geom/tests/test_mat3.cc [ 20%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_image.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_image.cc.o -MF CMakeFiles/ost_img_tests.dir/test_image.cc.o.d -o CMakeFiles/ost_img_tests.dir/test_image.cc.o -c /<>/modules/img/base/tests/test_image.cc [ 20%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_convolute.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_convolute.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_convolute.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_convolute.cc.o -c /<>/modules/img/alg/tests/test_convolute.cc [ 20%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_mat4.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -MD -MT modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_mat4.cc.o -MF CMakeFiles/ost_geom_tests.dir/test_mat4.cc.o.d -o CMakeFiles/ost_geom_tests.dir/test_mat4.cc.o -c /<>/modules/geom/tests/test_mat4.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/geom/tests/test_mat3.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/modules/img/base/tests/test_image.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/img/base/tests/test_image.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/geom/tests/test_mat4.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/modules/img/alg/tests/test_convolute.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/img/alg/tests/test_convolute.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 21%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_op2.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -MD -MT modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_op2.cc.o -MF CMakeFiles/ost_geom_tests.dir/test_op2.cc.o.d -o CMakeFiles/ost_geom_tests.dir/test_op2.cc.o -c /<>/modules/geom/tests/test_op2.cc [ 23%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_discrete_shrink.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_discrete_shrink.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_discrete_shrink.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_discrete_shrink.cc.o -c /<>/modules/img/alg/tests/test_discrete_shrink.cc [ 23%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_op3.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -MD -MT modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_op3.cc.o -MF CMakeFiles/ost_geom_tests.dir/test_op3.cc.o.d -o CMakeFiles/ost_geom_tests.dir/test_op3.cc.o -c /<>/modules/geom/tests/test_op3.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/geom/tests/test_op2.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/modules/img/alg/tests/test_discrete_shrink.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/img/alg/tests/test_discrete_shrink.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/geom/tests/test_op3.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 23%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_fft.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_fft.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_fft.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_fft.cc.o -c /<>/modules/img/alg/tests/test_fft.cc [ 23%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_op4.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -MD -MT modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_op4.cc.o -MF CMakeFiles/ost_geom_tests.dir/test_op4.cc.o.d -o CMakeFiles/ost_geom_tests.dir/test_op4.cc.o -c /<>/modules/geom/tests/test_op4.cc [ 23%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_image_state.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_image_state.cc.o -MF CMakeFiles/ost_img_tests.dir/test_image_state.cc.o.d -o CMakeFiles/ost_img_tests.dir/test_image_state.cc.o -c /<>/modules/img/base/tests/test_image_state.cc [ 23%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_quat.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -MD -MT modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_quat.cc.o -MF CMakeFiles/ost_geom_tests.dir/test_quat.cc.o.d -o CMakeFiles/ost_geom_tests.dir/test_quat.cc.o -c /<>/modules/geom/tests/test_quat.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/geom/tests/test_op4.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/modules/img/alg/tests/test_fft.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/modules/img/alg/tests/test_fft.cc:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/extent.hh:34, from /<>/modules/img/base/tests/test_image_state.cc:32: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/istream:40, from /usr/include/c++/13/sstream:40, from /<>/modules/img/base/tests/test_image_state.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/geom/tests/test_quat.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 23%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_vec2.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -MD -MT modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_vec2.cc.o -MF CMakeFiles/ost_geom_tests.dir/test_vec2.cc.o.d -o CMakeFiles/ost_geom_tests.dir/test_vec2.cc.o -c /<>/modules/geom/tests/test_vec2.cc [ 23%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_image_state_visitor.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_image_state_visitor.cc.o -MF CMakeFiles/ost_img_tests.dir/test_image_state_visitor.cc.o.d -o CMakeFiles/ost_img_tests.dir/test_image_state_visitor.cc.o -c /<>/modules/img/base/tests/test_image_state_visitor.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/geom/tests/test_vec2.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 23%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_vec3.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -MD -MT modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_vec3.cc.o -MF CMakeFiles/ost_geom_tests.dir/test_vec3.cc.o.d -o CMakeFiles/ost_geom_tests.dir/test_vec3.cc.o -c /<>/modules/geom/tests/test_vec3.cc [ 23%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_fill.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_fill.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_fill.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_fill.cc.o -c /<>/modules/img/alg/tests/test_fill.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_impl.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_def.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state.hh:31, from /<>/modules/img/base/tests/test_image_state_visitor.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/img/base/tests/test_image_state_visitor.hh:29, from /<>/modules/img/base/tests/test_image_state_visitor.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/geom/tests/test_vec3.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 23%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_vec4.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -MD -MT modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_vec4.cc.o -MF CMakeFiles/ost_geom_tests.dir/test_vec4.cc.o.d -o CMakeFiles/ost_geom_tests.dir/test_vec4.cc.o -c /<>/modules/geom/tests/test_vec4.cc [ 24%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_index.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_index.cc.o -MF CMakeFiles/ost_img_tests.dir/test_index.cc.o.d -o CMakeFiles/ost_img_tests.dir/test_index.cc.o -c /<>/modules/img/base/tests/test_index.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/modules/img/alg/tests/test_fill.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/img/alg/tests/test_fill.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/geom/tests/test_vec4.cc:20: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/stdexcept:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec2.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec.hh:24, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 24%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_transform.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -MD -MT modules/geom/tests/CMakeFiles/ost_geom_tests.dir/test_transform.cc.o -MF CMakeFiles/ost_geom_tests.dir/test_transform.cc.o.d -o CMakeFiles/ost_geom_tests.dir/test_transform.cc.o -c /<>/modules/geom/tests/test_transform.cc [ 24%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_filter.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_filter.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_filter.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_filter.cc.o -c /<>/modules/img/alg/tests/test_filter.cc [ 24%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_point.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_point.cc.o -MF CMakeFiles/ost_img_tests.dir/test_point.cc.o.d -o CMakeFiles/ost_img_tests.dir/test_point.cc.o -c /<>/modules/img/base/tests/test_point.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/modules/geom/tests/test_transform.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/geom/tests/test_transform.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 24%] Building CXX object modules/geom/tests/CMakeFiles/ost_geom_tests.dir/tests.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -MD -MT modules/geom/tests/CMakeFiles/ost_geom_tests.dir/tests.cc.o -MF CMakeFiles/ost_geom_tests.dir/tests.cc.o.d -o CMakeFiles/ost_geom_tests.dir/tests.cc.o -c /<>/modules/geom/tests/tests.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/modules/img/alg/tests/test_filter.cc:28: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/img/alg/tests/test_filter.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/modules/img/base/tests/test_point.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/img/base/tests/test_point.hh:29, from /<>/modules/img/base/tests/test_point.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 24%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_sampling.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_sampling.cc.o -MF CMakeFiles/ost_img_tests.dir/test_sampling.cc.o.d -o CMakeFiles/ost_img_tests.dir/test_sampling.cc.o -c /<>/modules/img/base/tests/test_sampling.cc [ 24%] Linking CXX executable ../../../tests/ost_geom_tests cd /<>/obj-arm-linux-gnueabihf/modules/geom/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_geom_tests.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro CMakeFiles/ost_geom_tests.dir/test_composite3.cc.o CMakeFiles/ost_geom_tests.dir/test_composite2.cc.o CMakeFiles/ost_geom_tests.dir/test_mat2.cc.o CMakeFiles/ost_geom_tests.dir/test_mat3.cc.o CMakeFiles/ost_geom_tests.dir/test_mat4.cc.o CMakeFiles/ost_geom_tests.dir/test_op2.cc.o CMakeFiles/ost_geom_tests.dir/test_op3.cc.o CMakeFiles/ost_geom_tests.dir/test_op4.cc.o CMakeFiles/ost_geom_tests.dir/test_quat.cc.o CMakeFiles/ost_geom_tests.dir/test_vec2.cc.o CMakeFiles/ost_geom_tests.dir/test_vec3.cc.o CMakeFiles/ost_geom_tests.dir/test_vec4.cc.o CMakeFiles/ost_geom_tests.dir/test_transform.cc.o CMakeFiles/ost_geom_tests.dir/tests.cc.o -o ../../../tests/ost_geom_tests -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib /usr/lib/arm-linux-gnueabihf/libboost_unit_test_framework.so.1.83.0 ../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 24%] Built target ost_geom_tests make -f modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/build.make modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/mol/base/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/mol/base/tests /<>/obj-arm-linux-gnueabihf/modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/build.make modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 24%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_atom_groups.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_atom_groups.cc.o -MF CMakeFiles/ost_mol_tests.dir/test_atom_groups.cc.o.d -o CMakeFiles/ost_mol_tests.dir/test_atom_groups.cc.o -c /<>/modules/mol/base/tests/test_atom_groups.cc [ 24%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_domains.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_domains.cc.o -MF CMakeFiles/ost_img_tests.dir/test_domains.cc.o.d -o CMakeFiles/ost_img_tests.dir/test_domains.cc.o -c /<>/modules/img/base/tests/test_domains.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/pixel_sampling.hh:32, from /<>/modules/img/base/tests/test_sampling.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/img/base/tests/test_sampling.hh:29, from /<>/modules/img/base/tests/test_sampling.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/base/tests/test_atom_groups.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/mol/base/tests/test_atom_groups.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 24%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_size.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_size.cc.o -MF CMakeFiles/ost_img_tests.dir/test_size.cc.o.d -o CMakeFiles/ost_img_tests.dir/test_size.cc.o -c /<>/modules/img/base/tests/test_size.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_state/image_state_spatial_domain.hh:31, from /<>/modules/img/base/tests/test_domains.cc:31: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/istream:40, from /usr/include/c++/13/sstream:40, from /<>/modules/img/base/tests/test_domains.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 24%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_value_holder.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/base/tests/CMakeFiles/ost_img_tests.dir/test_value_holder.cc.o -MF CMakeFiles/ost_img_tests.dir/test_value_holder.cc.o.d -o CMakeFiles/ost_img_tests.dir/test_value_holder.cc.o -c /<>/modules/img/base/tests/test_value_holder.cc [ 24%] Building CXX object modules/img/base/tests/CMakeFiles/ost_img_tests.dir/tests.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/base/tests/CMakeFiles/ost_img_tests.dir/tests.cc.o -MF CMakeFiles/ost_img_tests.dir/tests.cc.o.d -o CMakeFiles/ost_img_tests.dir/tests.cc.o -c /<>/modules/img/base/tests/tests.cc [ 24%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_chain.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_chain.cc.o -MF CMakeFiles/ost_mol_tests.dir/test_chain.cc.o.d -o CMakeFiles/ost_mol_tests.dir/test_chain.cc.o -c /<>/modules/mol/base/tests/test_chain.cc [ 24%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_histogram.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_histogram.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_histogram.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_histogram.cc.o -c /<>/modules/img/alg/tests/test_histogram.cc [ 24%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_mirror.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_mirror.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_mirror.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_mirror.cc.o -c /<>/modules/img/alg/tests/test_mirror.cc [ 24%] Linking CXX executable ../../../../tests/ost_img_tests cd /<>/obj-arm-linux-gnueabihf/modules/img/base/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_img_tests.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro CMakeFiles/ost_img_tests.dir/test_data.cc.o CMakeFiles/ost_img_tests.dir/test_extent.cc.o CMakeFiles/ost_img_tests.dir/test_image.cc.o CMakeFiles/ost_img_tests.dir/test_image_state.cc.o CMakeFiles/ost_img_tests.dir/test_image_state_visitor.cc.o CMakeFiles/ost_img_tests.dir/test_index.cc.o CMakeFiles/ost_img_tests.dir/test_point.cc.o CMakeFiles/ost_img_tests.dir/test_sampling.cc.o CMakeFiles/ost_img_tests.dir/test_domains.cc.o CMakeFiles/ost_img_tests.dir/test_size.cc.o CMakeFiles/ost_img_tests.dir/test_value_holder.cc.o CMakeFiles/ost_img_tests.dir/tests.cc.o -o ../../../../tests/ost_img_tests -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib /usr/lib/arm-linux-gnueabihf/libboost_unit_test_framework.so.1.83.0 ../../../../stage/lib/libost_img_alg.so.2.5.0 ../../../../stage/lib/libost_img.so.2.5.0 ../../../../stage/lib/libost_info.so.2.5.0 ../../../../stage/lib/libost_base.so.2.5.0 ../../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 24%] Built target ost_img_tests make -f modules/seq/base/src/CMakeFiles/ost_seq.dir/build.make modules/seq/base/src/CMakeFiles/ost_seq.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/seq/base/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/seq/base/src /<>/obj-arm-linux-gnueabihf/modules/seq/base/src/CMakeFiles/ost_seq.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/seq/base/src/CMakeFiles/ost_seq.dir/build.make modules/seq/base/src/CMakeFiles/ost_seq.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/seq/base/src/CMakeFiles/ost_seq.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 25%] Built target ost_seq make -f modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/build.make modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/mol/base/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/mol/base/pymod /<>/obj-arm-linux-gnueabihf/modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/DependInfo.cmake "--color=" In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/base/tests/test_chain.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/mol/base/tests/test_chain.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/algorithm.hh:32, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/alg/histogram.hh:30, from /<>/modules/img/alg/tests/test_histogram.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/img/alg/tests/test_histogram.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/build.make modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/mol/base/pymod/CMakeFiles/_ost_mol.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 27%] Built target _ost_mol make -f modules/db/src/CMakeFiles/ost_db.dir/build.make modules/db/src/CMakeFiles/ost_db.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/db/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/db/src /<>/obj-arm-linux-gnueabihf/modules/db/src/CMakeFiles/ost_db.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/db/src/CMakeFiles/ost_db.dir/build.make modules/db/src/CMakeFiles/ost_db.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/db/src/CMakeFiles/ost_db.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 27%] Built target ost_db make -f modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/build.make modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/img/alg/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/img/alg/pymod /<>/obj-arm-linux-gnueabihf/modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/build.make modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/img/alg/pymod/CMakeFiles/_ost_img_alg.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 27%] Built target _ost_img_alg make -f modules/base/tests/CMakeFiles/ost_base_tests.dir/build.make modules/base/tests/CMakeFiles/ost_base_tests.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/base/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/base/tests /<>/obj-arm-linux-gnueabihf/modules/base/tests/CMakeFiles/ost_base_tests.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/base/tests/CMakeFiles/ost_base_tests.dir/build.make modules/base/tests/CMakeFiles/ost_base_tests.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 27%] Building CXX object modules/base/tests/CMakeFiles/ost_base_tests.dir/test_generic_property.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/tests/CMakeFiles/ost_base_tests.dir/test_generic_property.cc.o -MF CMakeFiles/ost_base_tests.dir/test_generic_property.cc.o.d -o CMakeFiles/ost_base_tests.dir/test_generic_property.cc.o -c /<>/modules/base/tests/test_generic_property.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/modules/img/alg/tests/test_mirror.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/img/alg/tests/test_mirror.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 27%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_negate.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_negate.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_negate.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_negate.cc.o -c /<>/modules/img/alg/tests/test_negate.cc [ 27%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_power_spectrum.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_power_spectrum.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_power_spectrum.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_power_spectrum.cc.o -c /<>/modules/img/alg/tests/test_power_spectrum.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/base/tests/test_generic_property.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/base/tests/test_generic_property.cc:21: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/modules/img/alg/tests/test_negate.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/img/alg/tests/test_negate.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/modules/img/alg/tests/test_power_spectrum.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/img/alg/tests/test_power_spectrum.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 27%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_shift.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_shift.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_shift.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_shift.cc.o -c /<>/modules/img/alg/tests/test_shift.cc [ 27%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_stat.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_stat.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_stat.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_stat.cc.o -c /<>/modules/img/alg/tests/test_stat.cc [ 27%] Building CXX object modules/base/tests/CMakeFiles/ost_base_tests.dir/test_string_ref.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/tests/CMakeFiles/ost_base_tests.dir/test_string_ref.cc.o -MF CMakeFiles/ost_base_tests.dir/test_string_ref.cc.o.d -o CMakeFiles/ost_base_tests.dir/test_string_ref.cc.o -c /<>/modules/base/tests/test_string_ref.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/modules/img/alg/tests/test_shift.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/img/alg/tests/test_shift.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /usr/include/c++/13/string:54: In member function ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:899:15, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from ‘void mol_base::throw_invalid_chain_handle::test_method()’ at /<>/modules/mol/base/tests/test_chain.cc:114:18: /usr/include/c++/13/bits/basic_string.h:1079:16: warning: ‘((__vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[1]’ may be used uninitialized [-Wmaybe-uninitialized] 1079 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ In file included from /usr/include/boost/variant.hpp:17, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:30: /usr/include/boost/variant/variant.hpp: In member function ‘void mol_base::throw_invalid_chain_handle::test_method()’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ In member function ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::length() const [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’, inlined from ‘std::__cxx11::basic_string<_CharT, _Traits, _Alloc>& std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::operator=(std::__cxx11::basic_string<_CharT, _Traits, _Alloc>&&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/13/bits/basic_string.h:899:15, inlined from ‘void boost::detail::variant::move_storage::internal_visit(T&, int) const [with T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/variant.hpp:597:21, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke_impl(int, Visitor&, VoidPtrCV, T*, mpl_::true_) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:117:34, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl_invoke(int, Visitor&, VoidPtrCV, T*, NoBackupFlag, int) [with Visitor = move_storage; VoidPtrCV = void*; T = std::__cxx11::basic_string; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:157:41, inlined from ‘typename Visitor::result_type boost::detail::variant::visitation_impl(int, int, Visitor&, VoidPtrCV, mpl_::false_, NoBackupFlag, Which*, step0*) [with Which = mpl_::int_<0>; step0 = visitation_impl_step, std::__cxx11::basic_string, boost::mpl::l_item, float, boost::mpl::l_item, int, boost::mpl::l_item, bool, boost::mpl::l_item, geom::Vec3, boost::mpl::l_end> > > > > >, boost::mpl::l_iter >; Visitor = move_storage; VoidPtrCV = void*; NoBackupFlag = boost::variant, float, int, bool, geom::Vec3>::has_fallback_type_]’ at /usr/include/boost/variant/detail/visitation_impl.hpp:238:5, inlined from ‘static typename Visitor::result_type boost::variant::internal_apply_visitor_impl(int, int, Visitor&, VoidPtrCV) [with Visitor = boost::detail::variant::move_storage; VoidPtrCV = void*; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2338:48, inlined from ‘typename Visitor::result_type boost::variant::internal_apply_visitor(Visitor&) [with Visitor = boost::detail::variant::move_storage; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2350:43, inlined from ‘void boost::variant::variant_assign(boost::variant&&) [with T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2081:41, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2108:27, inlined from ‘void boost::variant::assign(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2095:10, inlined from ‘typename boost::enable_if >, boost::detail::variant::is_variant_constructible_from::is_recursive_, boost::mpl::transform::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type, boost::mpl::protect > > >, boost::mpl::identity::is_sequence_based_, typename boost::mpl::eval_if::is_recursive_, T0_, boost::mpl::identity >::type, boost::detail::variant::make_variant_list::is_recursive_, T0_, boost::mpl::identity >::type, TN ...> >::type> >::type, boost::mpl::protect > >::type> >, boost::variant&>::type boost::variant::operator=(const T&) [with T = int; T0_ = std::__cxx11::basic_string; TN = {float, int, bool, geom::Vec3}]’ at /usr/include/boost/variant/variant.hpp:2160:15, inlined from ‘void ost::GenericPropContainer::SetIntProp(const String&, int) [with H = ost::mol::ResidueBase]’ at /<>/obj-arm-linux-gnueabihf/stage/include/ost/generic_property.hh:365:38, inlined from ‘void mol_base::throw_invalid_chain_handle::test_method()’ at /<>/modules/mol/base/tests/test_chain.cc:114:18: /usr/include/c++/13/bits/basic_string.h:1079:16: warning: ‘((__vector(1) unsigned int*)((char*)&temp + offsetof(boost::variant, std::allocator >, float, int, bool, geom::Vec3>,boost::variant, std::allocator >, float, int, bool, geom::Vec3>::storage_.boost::aligned_storage<24, 4>::.boost::detail::aligned_storage::aligned_storage_imp<24, 4>::data_)))[2]’ may be used uninitialized [-Wmaybe-uninitialized] 1079 | { return _M_string_length; } | ^~~~~~~~~~~~~~~~ /usr/include/boost/variant/variant.hpp: In member function ‘void mol_base::throw_invalid_chain_handle::test_method()’: /usr/include/boost/variant/variant.hpp:2107:21: note: ‘temp’ declared here 2107 | variant temp(rhs); | ^~~~ [ 27%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_transform.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_transform.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_transform.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_transform.cc.o -c /<>/modules/img/alg/tests/test_transform.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/modules/img/alg/tests/test_stat.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/img/alg/tests/test_stat.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 27%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_conn.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_conn.cc.o -MF CMakeFiles/ost_mol_tests.dir/test_conn.cc.o.d -o CMakeFiles/ost_mol_tests.dir/test_conn.cc.o -c /<>/modules/mol/base/tests/test_conn.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/modules/img/alg/tests/test_transform.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/img/alg/tests/test_transform.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/base/tests/test_conn.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/mol/base/tests/test_conn.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 27%] Building CXX object modules/base/tests/CMakeFiles/ost_base_tests.dir/test_pod_vector.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/tests/CMakeFiles/ost_base_tests.dir/test_pod_vector.cc.o -MF CMakeFiles/ost_base_tests.dir/test_pod_vector.cc.o.d -o CMakeFiles/ost_base_tests.dir/test_pod_vector.cc.o -c /<>/modules/base/tests/test_pod_vector.cc [ 28%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_normalizer.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/test_normalizer.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/test_normalizer.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/test_normalizer.cc.o -c /<>/modules/img/alg/tests/test_normalizer.cc [ 28%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_coord_group.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_coord_group.cc.o -MF CMakeFiles/ost_mol_tests.dir/test_coord_group.cc.o.d -o CMakeFiles/ost_mol_tests.dir/test_coord_group.cc.o -c /<>/modules/mol/base/tests/test_coord_group.cc [ 28%] Building CXX object modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/tests.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/img/alg/tests/CMakeFiles/ost_img_alg_tests.dir/tests.cc.o -MF CMakeFiles/ost_img_alg_tests.dir/tests.cc.o.d -o CMakeFiles/ost_img_alg_tests.dir/tests.cc.o -c /<>/modules/img/alg/tests/tests.cc [ 28%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_builder.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_builder.cc.o -MF CMakeFiles/ost_mol_tests.dir/test_builder.cc.o.d -o CMakeFiles/ost_mol_tests.dir/test_builder.cc.o -c /<>/modules/mol/base/tests/test_builder.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/modules/img/alg/tests/test_normalizer.cc:35: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /usr/include/c++/13/iostream:41, from /<>/modules/img/alg/tests/test_normalizer.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 28%] Building CXX object modules/base/tests/CMakeFiles/ost_base_tests.dir/tests.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/base/tests/CMakeFiles/ost_base_tests.dir/tests.cc.o -MF CMakeFiles/ost_base_tests.dir/tests.cc.o.d -o CMakeFiles/ost_base_tests.dir/tests.cc.o -c /<>/modules/base/tests/tests.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/base/tests/test_coord_group.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/mol/base/tests/test_coord_group.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 28%] Linking CXX executable ../../../../tests/ost_img_alg_tests cd /<>/obj-arm-linux-gnueabihf/modules/img/alg/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_img_alg_tests.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro CMakeFiles/ost_img_alg_tests.dir/test_clear.cc.o CMakeFiles/ost_img_alg_tests.dir/test_conj.cc.o CMakeFiles/ost_img_alg_tests.dir/test_convolute.cc.o CMakeFiles/ost_img_alg_tests.dir/test_discrete_shrink.cc.o CMakeFiles/ost_img_alg_tests.dir/test_fft.cc.o CMakeFiles/ost_img_alg_tests.dir/test_fill.cc.o CMakeFiles/ost_img_alg_tests.dir/test_filter.cc.o CMakeFiles/ost_img_alg_tests.dir/test_histogram.cc.o CMakeFiles/ost_img_alg_tests.dir/test_mirror.cc.o CMakeFiles/ost_img_alg_tests.dir/test_negate.cc.o CMakeFiles/ost_img_alg_tests.dir/test_power_spectrum.cc.o CMakeFiles/ost_img_alg_tests.dir/test_shift.cc.o CMakeFiles/ost_img_alg_tests.dir/test_stat.cc.o CMakeFiles/ost_img_alg_tests.dir/test_transform.cc.o CMakeFiles/ost_img_alg_tests.dir/test_normalizer.cc.o CMakeFiles/ost_img_alg_tests.dir/tests.cc.o -o ../../../../tests/ost_img_alg_tests -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib /usr/lib/arm-linux-gnueabihf/libboost_unit_test_framework.so.1.83.0 ../../../../stage/lib/libost_img_alg.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so ../../../../stage/lib/libost_img.so.2.5.0 ../../../../stage/lib/libost_info.so.2.5.0 ../../../../stage/lib/libost_base.so.2.5.0 ../../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 [ 29%] Linking CXX executable ../../../tests/ost_base_tests cd /<>/obj-arm-linux-gnueabihf/modules/base/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_base_tests.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro CMakeFiles/ost_base_tests.dir/test_generic_property.cc.o CMakeFiles/ost_base_tests.dir/test_string_ref.cc.o CMakeFiles/ost_base_tests.dir/test_pod_vector.cc.o CMakeFiles/ost_base_tests.dir/tests.cc.o -o ../../../tests/ost_base_tests -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib /usr/lib/arm-linux-gnueabihf/libboost_unit_test_framework.so.1.83.0 ../../../stage/lib/libost_mol.so.2.5.0 ../../../stage/lib/libost_info.so.2.5.0 ../../../stage/lib/libost_base.so.2.5.0 ../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 29%] Built target ost_img_alg_tests [ 29%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_delete.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_delete.cc.o -MF CMakeFiles/ost_mol_tests.dir/test_delete.cc.o.d -o CMakeFiles/ost_mol_tests.dir/test_delete.cc.o -c /<>/modules/mol/base/tests/test_delete.cc make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 29%] Built target ost_base_tests make -f modules/bindings/src/CMakeFiles/ost_bindings.dir/build.make modules/bindings/src/CMakeFiles/ost_bindings.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/bindings/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/bindings/src /<>/obj-arm-linux-gnueabihf/modules/bindings/src/CMakeFiles/ost_bindings.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/bindings/src/CMakeFiles/ost_bindings.dir/build.make modules/bindings/src/CMakeFiles/ost_bindings.dir/build In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/builder.hh:26, from /<>/modules/mol/base/tests/test_builder.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/builder.hh:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/bindings/src/CMakeFiles/ost_bindings.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 29%] Built target ost_bindings make -f modules/geom/tests/CMakeFiles/ost_geom_tests_run.dir/build.make modules/geom/tests/CMakeFiles/ost_geom_tests_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/geom/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/geom/tests /<>/obj-arm-linux-gnueabihf/modules/geom/tests/CMakeFiles/ost_geom_tests_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/geom/tests/CMakeFiles/ost_geom_tests_run.dir/build.make modules/geom/tests/CMakeFiles/ost_geom_tests_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 29%] running checks for module geom cd /<>/modules/geom/tests && env OST_ROOT=/<>/obj-arm-linux-gnueabihf/stage /<>/obj-arm-linux-gnueabihf/tests/ost_geom_tests Running 25 test cases... *** No errors detected make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 29%] Built target ost_geom_tests_run make -f modules/img/base/tests/CMakeFiles/ost_img_tests_run.dir/build.make modules/img/base/tests/CMakeFiles/ost_img_tests_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/img/base/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/img/base/tests /<>/obj-arm-linux-gnueabihf/modules/img/base/tests/CMakeFiles/ost_img_tests_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/img/base/tests/CMakeFiles/ost_img_tests_run.dir/build.make modules/img/base/tests/CMakeFiles/ost_img_tests_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 29%] running checks for module img cd /<>/modules/img/base/tests && env OST_ROOT=/<>/obj-arm-linux-gnueabihf/stage /<>/obj-arm-linux-gnueabihf/tests/ost_img_tests Running 44 test cases... *** No errors detected make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 29%] Built target ost_img_tests_run make -f modules/img/alg/tests/CMakeFiles/ost_img_alg_tests_run.dir/build.make modules/img/alg/tests/CMakeFiles/ost_img_alg_tests_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/img/alg/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/img/alg/tests /<>/obj-arm-linux-gnueabihf/modules/img/alg/tests/CMakeFiles/ost_img_alg_tests_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/img/alg/tests/CMakeFiles/ost_img_alg_tests_run.dir/build.make modules/img/alg/tests/CMakeFiles/ost_img_alg_tests_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 29%] running checks for module img_alg cd /<>/modules/img/alg/tests && env OST_ROOT=/<>/obj-arm-linux-gnueabihf/stage /<>/obj-arm-linux-gnueabihf/tests/ost_img_alg_tests Running 25 test cases... *** No errors detected make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 29%] Built target ost_img_alg_tests_run make -f modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/build.make modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/seq/base/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/seq/base/tests /<>/obj-arm-linux-gnueabihf/modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/build.make modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 29%] Building CXX object modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/test_sequence.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/test_sequence.cc.o -MF CMakeFiles/ost_seq_tests.dir/test_sequence.cc.o.d -o CMakeFiles/ost_seq_tests.dir/test_sequence.cc.o -c /<>/modules/seq/base/tests/test_sequence.cc [ 29%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_entity.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_entity.cc.o -MF CMakeFiles/ost_mol_tests.dir/test_entity.cc.o.d -o CMakeFiles/ost_mol_tests.dir/test_entity.cc.o -c /<>/modules/mol/base/tests/test_entity.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/base/tests/test_delete.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/mol/base/tests/test_delete.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/seq/base/tests/test_sequence.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/seq/base/tests/test_sequence.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec_mat_predicates.hh:28, from /<>/modules/mol/base/tests/test_entity.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/mol/base/tests/test_entity.cc:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_ics.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_ics.cc.o -MF CMakeFiles/ost_mol_tests.dir/test_ics.cc.o.d -o CMakeFiles/ost_mol_tests.dir/test_ics.cc.o -c /<>/modules/mol/base/tests/test_ics.cc /<>/modules/mol/base/tests/test_entity.cc: In member function ‘void mol_base::minmax::test_method()’: /<>/modules/mol/base/tests/test_entity.cc:438:66: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 438 | std::pair minmax = ev.GetMinMax("test", Prop::ATOM); | ^ [ 29%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_query.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_query.cc.o -MF CMakeFiles/ost_mol_tests.dir/test_query.cc.o.d -o CMakeFiles/ost_mol_tests.dir/test_query.cc.o -c /<>/modules/mol/base/tests/test_query.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/base/tests/test_ics.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/mol/base/tests/test_ics.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/modules/mol/base/tests/test_query.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/mol/base/tests/test_query.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Building CXX object modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/test_aligned_column.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/test_aligned_column.cc.o -MF CMakeFiles/ost_seq_tests.dir/test_aligned_column.cc.o.d -o CMakeFiles/ost_seq_tests.dir/test_aligned_column.cc.o -c /<>/modules/seq/base/tests/test_aligned_column.cc [ 30%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_surface.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_surface.cc.o -MF CMakeFiles/ost_mol_tests.dir/test_surface.cc.o.d -o CMakeFiles/ost_mol_tests.dir/test_surface.cc.o -c /<>/modules/mol/base/tests/test_surface.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/seq/base/tests/test_aligned_column.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/seq/base/tests/test_aligned_column.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /<>/modules/seq/base/tests/test_aligned_column.cc:28: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_region.hh:27, from /<>/modules/seq/base/tests/test_aligned_column.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:29:43: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 29 | class AlignedColumnIterator : public std::iterator>/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_residue.cc.o -MF CMakeFiles/ost_mol_tests.dir/test_residue.cc.o.d -o CMakeFiles/ost_mol_tests.dir/test_residue.cc.o -c /<>/modules/mol/base/tests/test_residue.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface_prop.hh:25, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/surface_handle.hh:24, from /<>/modules/mol/base/tests/test_surface.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/mol/base/tests/test_surface.cc:21: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 30%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_view.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_view.cc.o -MF CMakeFiles/ost_mol_tests.dir/test_view.cc.o.d -o CMakeFiles/ost_mol_tests.dir/test_view.cc.o -c /<>/modules/mol/base/tests/test_view.cc [ 30%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_transfer_connectivity.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_transfer_connectivity.cc.o -MF CMakeFiles/ost_mol_tests.dir/test_transfer_connectivity.cc.o.d -o CMakeFiles/ost_mol_tests.dir/test_transfer_connectivity.cc.o -c /<>/modules/mol/base/tests/test_transfer_connectivity.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/base/tests/test_residue.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/mol/base/tests/test_residue.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 30%] Building CXX object modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/test_aligned_region.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/test_aligned_region.cc.o -MF CMakeFiles/ost_seq_tests.dir/test_aligned_region.cc.o.d -o CMakeFiles/ost_seq_tests.dir/test_aligned_region.cc.o -c /<>/modules/seq/base/tests/test_aligned_region.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/base/tests/test_view.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/mol/base/tests/test_view.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/builder.hh:26, from /<>/modules/mol/base/tests/test_transfer_connectivity.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/module_config.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/builder.hh:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/seq/base/tests/test_aligned_region.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/seq/base/tests/test_aligned_region.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /<>/modules/seq/base/tests/test_aligned_region.cc:28: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_region.hh:27, from /<>/modules/seq/base/tests/test_aligned_region.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:29:43: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 29 | class AlignedColumnIterator : public std::iterator>/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/test_view_op.cc.o -MF CMakeFiles/ost_mol_tests.dir/test_view_op.cc.o.d -o CMakeFiles/ost_mol_tests.dir/test_view_op.cc.o -c /<>/modules/mol/base/tests/test_view_op.cc [ 30%] Building CXX object modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/tests.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/base/tests/CMakeFiles/ost_mol_tests.dir/tests.cc.o -MF CMakeFiles/ost_mol_tests.dir/tests.cc.o.d -o CMakeFiles/ost_mol_tests.dir/tests.cc.o -c /<>/modules/mol/base/tests/tests.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/base/tests/test_view_op.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/mol/base/tests/test_view_op.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 30%] Building CXX object modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/test_alignment.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/test_alignment.cc.o -MF CMakeFiles/ost_seq_tests.dir/test_alignment.cc.o.d -o CMakeFiles/ost_seq_tests.dir/test_alignment.cc.o -c /<>/modules/seq/base/tests/test_alignment.cc [ 30%] Building CXX object modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/test_profile.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/test_profile.cc.o -MF CMakeFiles/ost_seq_tests.dir/test_profile.cc.o.d -o CMakeFiles/ost_seq_tests.dir/test_profile.cc.o -c /<>/modules/seq/base/tests/test_profile.cc [ 30%] Building CXX object modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/tests.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/base/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/seq/base/tests/CMakeFiles/ost_seq_tests.dir/tests.cc.o -MF CMakeFiles/ost_seq_tests.dir/tests.cc.o.d -o CMakeFiles/ost_seq_tests.dir/tests.cc.o -c /<>/modules/seq/base/tests/tests.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/seq/base/tests/test_alignment.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/seq/base/tests/test_alignment.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /<>/modules/seq/base/tests/test_alignment.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_region.hh:27, from /<>/modules/seq/base/tests/test_alignment.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/aligned_column_iterator.hh:29:43: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 29 | class AlignedColumnIterator : public std::iterator>/obj-arm-linux-gnueabihf/modules/seq/base/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_seq_tests.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro CMakeFiles/ost_seq_tests.dir/test_sequence.cc.o CMakeFiles/ost_seq_tests.dir/test_aligned_column.cc.o CMakeFiles/ost_seq_tests.dir/test_aligned_region.cc.o CMakeFiles/ost_seq_tests.dir/test_alignment.cc.o CMakeFiles/ost_seq_tests.dir/test_profile.cc.o CMakeFiles/ost_seq_tests.dir/tests.cc.o -o ../../../../tests/ost_seq_tests -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib /usr/lib/arm-linux-gnueabihf/libboost_unit_test_framework.so.1.83.0 ../../../../stage/lib/libost_seq.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so.1.83.0 ../../../../stage/lib/libost_mol.so.2.5.0 ../../../../stage/lib/libost_info.so.2.5.0 ../../../../stage/lib/libost_base.so.2.5.0 ../../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 30%] Built target ost_seq_tests make -f modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/build.make modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/depend make -f modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/build.make modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/depend make -f modules/conop/src/CMakeFiles/ost_conop.dir/build.make modules/conop/src/CMakeFiles/ost_conop.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/seq/base/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/seq/base/pymod /<>/obj-arm-linux-gnueabihf/modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/seq/alg/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src /<>/obj-arm-linux-gnueabihf/modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/conop/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/conop/src /<>/obj-arm-linux-gnueabihf/modules/conop/src/CMakeFiles/ost_conop.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/build.make modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/seq/base/pymod/CMakeFiles/_ost_seq.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 31%] Built target _ost_seq make -f modules/base/tests/CMakeFiles/ost_base_tests_run.dir/build.make modules/base/tests/CMakeFiles/ost_base_tests_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/base/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/base/tests /<>/obj-arm-linux-gnueabihf/modules/base/tests/CMakeFiles/ost_base_tests_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/base/tests/CMakeFiles/ost_base_tests_run.dir/build.make modules/base/tests/CMakeFiles/ost_base_tests_run.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make -f modules/conop/src/CMakeFiles/ost_conop.dir/build.make modules/conop/src/CMakeFiles/ost_conop.dir/build [ 31%] running checks for module base cd /<>/modules/base/tests && env OST_ROOT=/<>/obj-arm-linux-gnueabihf/stage /<>/obj-arm-linux-gnueabihf/tests/ost_base_tests make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/conop/src/CMakeFiles/ost_conop.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' Running 5 test cases... *** No errors detected make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 32%] Built target ost_conop make -f modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/build.make modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/depend [ 32%] Built target ost_base_tests_run make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/bindings/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod /<>/obj-arm-linux-gnueabihf/modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/DependInfo.cmake "--color=" make -f modules/conop/tests/CMakeFiles/ost_conop_tests.dir/build.make modules/conop/tests/CMakeFiles/ost_conop_tests.dir/depend make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/build.make modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/conop/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/conop/tests /<>/obj-arm-linux-gnueabihf/modules/conop/tests/CMakeFiles/ost_conop_tests.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/conop/tests/CMakeFiles/ost_conop_tests.dir/build.make modules/conop/tests/CMakeFiles/ost_conop_tests.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 32%] Building CXX object modules/conop/tests/CMakeFiles/ost_conop_tests.dir/test_amino_acids.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/conop/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/conop/tests/CMakeFiles/ost_conop_tests.dir/test_amino_acids.cc.o -MF CMakeFiles/ost_conop_tests.dir/test_amino_acids.cc.o.d -o CMakeFiles/ost_conop_tests.dir/test_amino_acids.cc.o -c /<>/modules/conop/tests/test_amino_acids.cc make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/seq/alg/src/CMakeFiles/ost_seq_alg.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 32%] Linking CXX executable ../../../../tests/ost_mol_tests cd /<>/obj-arm-linux-gnueabihf/modules/mol/base/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_mol_tests.dir/link.txt --verbose=1 make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/build.make modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/build [ 35%] Built target ost_seq_alg /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro CMakeFiles/ost_mol_tests.dir/test_atom_groups.cc.o CMakeFiles/ost_mol_tests.dir/test_chain.cc.o CMakeFiles/ost_mol_tests.dir/test_conn.cc.o CMakeFiles/ost_mol_tests.dir/test_coord_group.cc.o CMakeFiles/ost_mol_tests.dir/test_builder.cc.o CMakeFiles/ost_mol_tests.dir/test_delete.cc.o CMakeFiles/ost_mol_tests.dir/test_entity.cc.o CMakeFiles/ost_mol_tests.dir/test_ics.cc.o CMakeFiles/ost_mol_tests.dir/test_query.cc.o CMakeFiles/ost_mol_tests.dir/test_surface.cc.o CMakeFiles/ost_mol_tests.dir/test_residue.cc.o CMakeFiles/ost_mol_tests.dir/test_view.cc.o CMakeFiles/ost_mol_tests.dir/test_transfer_connectivity.cc.o CMakeFiles/ost_mol_tests.dir/test_view_op.cc.o CMakeFiles/ost_mol_tests.dir/tests.cc.o -o ../../../../tests/ost_mol_tests -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib /usr/lib/arm-linux-gnueabihf/libboost_unit_test_framework.so.1.83.0 ../../../../stage/lib/libost_mol.so.2.5.0 ../../../../stage/lib/libost_info.so.2.5.0 ../../../../stage/lib/libost_base.so.2.5.0 ../../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 make -f modules/seq/base/tests/CMakeFiles/ost_seq_tests_run.dir/build.make modules/seq/base/tests/CMakeFiles/ost_seq_tests_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/seq/base/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/seq/base/tests /<>/obj-arm-linux-gnueabihf/modules/seq/base/tests/CMakeFiles/ost_seq_tests_run.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/bindings/pymod/CMakeFiles/_ost_bindings.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/seq/base/tests/CMakeFiles/ost_seq_tests_run.dir/build.make modules/seq/base/tests/CMakeFiles/ost_seq_tests_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 35%] Built target _ost_bindings make -f modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/build.make modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/seq/alg/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/seq/alg/pymod /<>/obj-arm-linux-gnueabihf/modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/DependInfo.cmake "--color=" [ 36%] running checks for module seq cd /<>/modules/seq/base/tests && env OST_ROOT=/<>/obj-arm-linux-gnueabihf/stage /<>/obj-arm-linux-gnueabihf/tests/ost_seq_tests make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/build.make modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/build Running 32 test cases... *** No errors detected make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/seq/alg/pymod/CMakeFiles/_ost_seq_alg.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 36%] Built target ost_seq_tests_run make -f modules/gfx/src/CMakeFiles/ost_gfx.dir/build.make modules/gfx/src/CMakeFiles/ost_gfx.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/gfx/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/gfx/src /<>/obj-arm-linux-gnueabihf/modules/gfx/src/CMakeFiles/ost_gfx.dir/DependInfo.cmake "--color=" [ 36%] Built target _ost_seq_alg make -f modules/db/pymod/CMakeFiles/_ost_db.dir/build.make modules/db/pymod/CMakeFiles/_ost_db.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/db/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/db/pymod /<>/obj-arm-linux-gnueabihf/modules/db/pymod/CMakeFiles/_ost_db.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/db/pymod/CMakeFiles/_ost_db.dir/build.make modules/db/pymod/CMakeFiles/_ost_db.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/db/pymod/CMakeFiles/_ost_db.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 37%] Built target _ost_db make -f modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/build.make modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/mol/alg/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src /<>/obj-arm-linux-gnueabihf/modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/build.make modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/build make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 37%] Built target ost_mol_tests make -f modules/conop/pymod/CMakeFiles/_ost_conop.dir/build.make modules/conop/pymod/CMakeFiles/_ost_conop.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/conop/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/conop/pymod /<>/obj-arm-linux-gnueabihf/modules/conop/pymod/CMakeFiles/_ost_conop.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/mol/alg/src/CMakeFiles/ost_mol_alg.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 39%] Built target ost_mol_alg make -f modules/mol/base/tests/CMakeFiles/ost_mol_tests_run.dir/build.make modules/mol/base/tests/CMakeFiles/ost_mol_tests_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/mol/base/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/mol/base/tests /<>/obj-arm-linux-gnueabihf/modules/mol/base/tests/CMakeFiles/ost_mol_tests_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/mol/base/tests/CMakeFiles/ost_mol_tests_run.dir/build.make modules/mol/base/tests/CMakeFiles/ost_mol_tests_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 39%] running checks for module mol cd /<>/modules/mol/base/tests && env OST_ROOT=/<>/obj-arm-linux-gnueabihf/stage /<>/obj-arm-linux-gnueabihf/tests/ost_mol_tests Running 72 test cases... *** No errors detected make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 39%] Built target ost_mol_tests_run make -f modules/io/src/CMakeFiles/ost_io.dir/build.make modules/io/src/CMakeFiles/ost_io.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/io/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/io/src /<>/obj-arm-linux-gnueabihf/modules/io/src/CMakeFiles/ost_io.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/conop/pymod/CMakeFiles/_ost_conop.dir/build.make modules/conop/pymod/CMakeFiles/_ost_conop.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/conop/pymod/CMakeFiles/_ost_conop.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/gfx/src/CMakeFiles/ost_gfx.dir/build.make modules/gfx/src/CMakeFiles/ost_gfx.dir/build [ 40%] Built target _ost_conop make -f modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/build.make modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/mol/alg/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod /<>/obj-arm-linux-gnueabihf/modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/gfx/src/CMakeFiles/ost_gfx.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 47%] Built target ost_gfx make -f modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/build.make modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/gfx/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod /<>/obj-arm-linux-gnueabihf/modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/build.make modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/mol/alg/pymod/CMakeFiles/_ost_mol_alg.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 48%] Built target _ost_mol_alg [ 48%] Building CXX object modules/conop/tests/CMakeFiles/ost_conop_tests.dir/test_heuristic_conop.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/conop/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/conop/tests/CMakeFiles/ost_conop_tests.dir/test_heuristic_conop.cc.o -MF CMakeFiles/ost_conop_tests.dir/test_heuristic_conop.cc.o.d -o CMakeFiles/ost_conop_tests.dir/test_heuristic_conop.cc.o -c /<>/modules/conop/tests/test_heuristic_conop.cc make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/build.make modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/gfx/pymod/CMakeFiles/_ost_gfx.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 50%] Built target _ost_gfx [ 50%] Building CXX object modules/conop/tests/CMakeFiles/ost_conop_tests.dir/tests.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/conop/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/conop/tests/CMakeFiles/ost_conop_tests.dir/tests.cc.o -MF CMakeFiles/ost_conop_tests.dir/tests.cc.o.d -o CMakeFiles/ost_conop_tests.dir/tests.cc.o -c /<>/modules/conop/tests/tests.cc make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/io/src/CMakeFiles/ost_io.dir/build.make modules/io/src/CMakeFiles/ost_io.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/io/src/CMakeFiles/ost_io.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 56%] Built target ost_io make -f modules/gui/src/CMakeFiles/ost_gui.dir/build.make modules/gui/src/CMakeFiles/ost_gui.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/gui/src /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/gui/src /<>/obj-arm-linux-gnueabihf/modules/gui/src/CMakeFiles/ost_gui.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/gui/src/CMakeFiles/ost_gui.dir/build.make modules/gui/src/CMakeFiles/ost_gui.dir/build In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_handle.hh:25, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/amino_acids.hh:26, from /<>/modules/conop/tests/test_amino_acids.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/conop/tests/test_amino_acids.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/conop/amino_acids.hh:61:42: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 61 | class AminoAcidSetIterator : public std::iterator>/obj-arm-linux-gnueabihf/modules/conop/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/conop/tests/CMakeFiles/ost_conop_tests.dir/test_rule_based_conop.cc.o -MF CMakeFiles/ost_conop_tests.dir/test_rule_based_conop.cc.o.d -o CMakeFiles/ost_conop_tests.dir/test_rule_based_conop.cc.o -c /<>/modules/conop/tests/test_rule_based_conop.cc make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/gui/src/CMakeFiles/ost_gui.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 90%] Built target ost_gui make -f modules/io/pymod/CMakeFiles/_ost_io.dir/build.make modules/io/pymod/CMakeFiles/_ost_io.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/io/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/io/pymod /<>/obj-arm-linux-gnueabihf/modules/io/pymod/CMakeFiles/_ost_io.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/io/pymod/CMakeFiles/_ost_io.dir/build.make modules/io/pymod/CMakeFiles/_ost_io.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/io/pymod/CMakeFiles/_ost_io.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 91%] Built target _ost_io make -f modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/build.make modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/gfx/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/gfx/tests /<>/obj-arm-linux-gnueabihf/modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/build.make modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 91%] Building CXX object modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/tests.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/tests.cc.o -MF CMakeFiles/ost_gfx_tests.dir/tests.cc.o.d -o CMakeFiles/ost_gfx_tests.dir/tests.cc.o -c /<>/modules/gfx/tests/tests.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/conop/tests/test_heuristic_conop.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/c++/13/bits/locale_classes.h:40, from /usr/include/c++/13/bits/ios_base.h:41, from /usr/include/c++/13/ios:44, from /usr/include/c++/13/ostream:40, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/log.hh:22, from /<>/modules/conop/tests/test_heuristic_conop.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 91%] Building CXX object modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/test_gfx_node.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/test_gfx_node.cc.o -MF CMakeFiles/ost_gfx_tests.dir/test_gfx_node.cc.o.d -o CMakeFiles/ost_gfx_tests.dir/test_gfx_node.cc.o -c /<>/modules/gfx/tests/test_gfx_node.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/conop/tests/test_rule_based_conop.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/conop/tests/test_rule_based_conop.cc:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object_base.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_object.hh:40, from /<>/modules/gfx/tests/test_gfx_node.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/gfx_node.hh:26, from /<>/modules/gfx/tests/test_gfx_node.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 91%] Building CXX object modules/conop/tests/CMakeFiles/ost_conop_tests.dir/helper.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/conop/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/conop/tests/CMakeFiles/ost_conop_tests.dir/helper.cc.o -MF CMakeFiles/ost_conop_tests.dir/helper.cc.o.d -o CMakeFiles/ost_conop_tests.dir/helper.cc.o -c /<>/modules/conop/tests/helper.cc [ 91%] Building CXX object modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/test_color.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/test_color.cc.o -MF CMakeFiles/ost_gfx_tests.dir/test_color.cc.o.d -o CMakeFiles/ost_gfx_tests.dir/test_color.cc.o -c /<>/modules/gfx/tests/test_color.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/xcs_editor.hh:26, from /<>/modules/conop/tests/helper.cc:3: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/conop/tests/helper.cc:2: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:31, from /<>/modules/gfx/tests/test_color.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/iterator:61, from /usr/include/boost/operators.hpp:98, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/color.hh:28: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 91%] Building CXX object modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/test_map_octree.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/gfx/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/gfx/tests/CMakeFiles/ost_gfx_tests.dir/test_map_octree.cc.o -MF CMakeFiles/ost_gfx_tests.dir/test_map_octree.cc.o.d -o CMakeFiles/ost_gfx_tests.dir/test_map_octree.cc.o -c /<>/modules/gfx/tests/test_map_octree.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/data.hh:36, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_handle.hh:38, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/gfx/impl/map_octree.hh:22, from /<>/modules/gfx/tests/test_map_octree.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_construct.h:61, from /usr/include/c++/13/bits/stl_tempbuf.h:61, from /usr/include/c++/13/memory:66, from /usr/include/boost/smart_ptr/detail/sp_counted_impl.hpp:35, from /usr/include/boost/smart_ptr/detail/shared_count.hpp:27, from /usr/include/boost/smart_ptr/shared_ptr.hpp:18, from /usr/include/boost/shared_ptr.hpp:17, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image_handle.hh:32: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ make -f modules/io/tests/CMakeFiles/ost_io_tests.dir/build.make modules/io/tests/CMakeFiles/ost_io_tests.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/io/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/io/tests /<>/obj-arm-linux-gnueabihf/modules/io/tests/CMakeFiles/ost_io_tests.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/io/tests/CMakeFiles/ost_io_tests.dir/build.make modules/io/tests/CMakeFiles/ost_io_tests.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 91%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_clustal.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/test_clustal.cc.o -MF CMakeFiles/ost_io_tests.dir/test_clustal.cc.o.d -o CMakeFiles/ost_io_tests.dir/test_clustal.cc.o -c /<>/modules/io/tests/test_clustal.cc [ 92%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_pdb.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_pdb.cc.o -MF CMakeFiles/ost_io_tests.dir/test_io_pdb.cc.o.d -o CMakeFiles/ost_io_tests.dir/test_io_pdb.cc.o -c /<>/modules/io/tests/test_io_pdb.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/clustal_io_handler.hh:25, from /<>/modules/io/tests/test_clustal.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/io/tests/test_clustal.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 92%] Linking CXX executable ../../../tests/ost_gfx_tests cd /<>/obj-arm-linux-gnueabihf/modules/gfx/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_gfx_tests.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro CMakeFiles/ost_gfx_tests.dir/tests.cc.o CMakeFiles/ost_gfx_tests.dir/test_gfx_node.cc.o CMakeFiles/ost_gfx_tests.dir/test_color.cc.o CMakeFiles/ost_gfx_tests.dir/test_map_octree.cc.o -o ../../../tests/ost_gfx_tests -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib /usr/lib/arm-linux-gnueabihf/libboost_unit_test_framework.so.1.83.0 ../../../stage/lib/libost_gfx.so.2.5.0 ../../../stage/lib/libost_io.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libOpenGL.so /usr/lib/arm-linux-gnueabihf/libGLX.so /usr/lib/arm-linux-gnueabihf/libGLU.so ../../../stage/lib/libost_mol_alg.so.2.5.0 ../../../stage/lib/libost_conop.so.2.5.0 ../../../stage/lib/libost_db.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libsqlite3.so ../../../stage/lib/libost_img_alg.so.2.5.0 ../../../stage/lib/libost_img.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so /usr/lib/arm-linux-gnueabihf/libboost_program_options.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_thread.so.1.83.0 ../../../stage/lib/libost_seq_alg.so.2.5.0 ../../../stage/lib/libost_seq.so.2.5.0 ../../../stage/lib/libost_mol.so.2.5.0 ../../../stage/lib/libost_info.so.2.5.0 ../../../stage/lib/libost_base.so.2.5.0 ../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libtiff.so /usr/lib/arm-linux-gnueabihf/libpng.so /usr/lib/arm-linux-gnueabihf/libz.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 92%] Built target ost_gfx_tests make -f modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/build.make modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/mol/alg/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/mol/alg/tests /<>/obj-arm-linux-gnueabihf/modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/build.make modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 92%] Building CXX object modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/test_superposition.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/test_superposition.cc.o -MF CMakeFiles/ost_mol_alg_tests.dir/test_superposition.cc.o.d -o CMakeFiles/ost_mol_alg_tests.dir/test_superposition.cc.o -c /<>/modules/mol/alg/tests/test_superposition.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/vec_mat_predicates.hh:28, from /<>/modules/io/tests/test_io_pdb.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/io/tests/test_io_pdb.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 92%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_crd.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_crd.cc.o -MF CMakeFiles/ost_io_tests.dir/test_io_crd.cc.o.d -o CMakeFiles/ost_io_tests.dir/test_io_crd.cc.o -c /<>/modules/io/tests/test_io_crd.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/pdb_reader.hh:28, from /<>/modules/io/tests/test_io_pdb.cc:33: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/svd_superpose.hh:27, from /<>/modules/mol/alg/tests/test_superposition.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/bits/specfun.h:43, from /usr/include/c++/13/cmath:3699, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/base.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/svd_superpose.hh:26: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 92%] Linking CXX executable ../../../tests/ost_conop_tests cd /<>/obj-arm-linux-gnueabihf/modules/conop/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_conop_tests.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro CMakeFiles/ost_conop_tests.dir/test_amino_acids.cc.o CMakeFiles/ost_conop_tests.dir/test_heuristic_conop.cc.o CMakeFiles/ost_conop_tests.dir/tests.cc.o CMakeFiles/ost_conop_tests.dir/test_rule_based_conop.cc.o CMakeFiles/ost_conop_tests.dir/helper.cc.o -o ../../../tests/ost_conop_tests -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib /usr/lib/arm-linux-gnueabihf/libboost_unit_test_framework.so.1.83.0 ../../../stage/lib/libost_conop.so.2.5.0 ../../../stage/lib/libost_db.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libsqlite3.so ../../../stage/lib/libost_seq.so.2.5.0 ../../../stage/lib/libost_mol.so.2.5.0 ../../../stage/lib/libost_info.so.2.5.0 ../../../stage/lib/libost_base.so.2.5.0 ../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so.1.83.0 make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 92%] Built target ost_conop_tests make -f modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/build.make modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/seq/alg/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/seq/alg/tests /<>/obj-arm-linux-gnueabihf/modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/build.make modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 92%] Building CXX object modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/test_distance_analysis.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/test_distance_analysis.cc.o -MF CMakeFiles/ost_seq_alg_tests.dir/test_distance_analysis.cc.o.d -o CMakeFiles/ost_seq_alg_tests.dir/test_distance_analysis.cc.o -c /<>/modules/seq/alg/tests/test_distance_analysis.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/io/tests/test_io_crd.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/io/tests/test_io_crd.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/xcs_editor.hh:26, from /<>/modules/seq/alg/tests/test_distance_analysis.cc:28: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/seq/alg/tests/test_distance_analysis.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/clip_alignment.hh:27, from /<>/modules/seq/alg/tests/test_distance_analysis.cc:30: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/local_dist_diff_test.hh:26, from /<>/modules/seq/alg/tests/test_distance_analysis.cc:34: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/filter_clashes.hh: In member function ‘std::pair ost::mol::alg::StereoChemicalBondViolation::GetAllowedRange() const’: /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/filter_clashes.hh:91:48: note: parameter passing for argument of type ‘std::pair’ when C++17 is enabled changed to match C++14 in GCC 10.1 91 | std::pair GetAllowedRange() const { return allowed_range_; } | ^ [ 92%] Building CXX object modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/tests.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/tests.cc.o -MF CMakeFiles/ost_mol_alg_tests.dir/tests.cc.o.d -o CMakeFiles/ost_mol_alg_tests.dir/tests.cc.o -c /<>/modules/mol/alg/tests/tests.cc [ 92%] Building CXX object modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/test_consistency_checks.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/test_consistency_checks.cc.o -MF CMakeFiles/ost_mol_alg_tests.dir/test_consistency_checks.cc.o.d -o CMakeFiles/ost_mol_alg_tests.dir/test_consistency_checks.cc.o -c /<>/modules/mol/alg/tests/test_consistency_checks.cc [ 92%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_dcd.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_dcd.cc.o -MF CMakeFiles/ost_io_tests.dir/test_io_dcd.cc.o.d -o CMakeFiles/ost_io_tests.dir/test_io_dcd.cc.o -c /<>/modules/io/tests/test_io_dcd.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/mol/alg/tests/test_consistency_checks.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/mol/alg/tests/test_consistency_checks.cc:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 92%] Building CXX object modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/test_merge_pairwise_alignments.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/test_merge_pairwise_alignments.cc.o -MF CMakeFiles/ost_seq_alg_tests.dir/test_merge_pairwise_alignments.cc.o.d -o CMakeFiles/ost_seq_alg_tests.dir/test_merge_pairwise_alignments.cc.o -c /<>/modules/seq/alg/tests/test_merge_pairwise_alignments.cc [ 92%] Building CXX object modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/test_partial_sec_struct_assignment.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests.dir/test_partial_sec_struct_assignment.cc.o -MF CMakeFiles/ost_mol_alg_tests.dir/test_partial_sec_struct_assignment.cc.o.d -o CMakeFiles/ost_mol_alg_tests.dir/test_partial_sec_struct_assignment.cc.o -c /<>/modules/mol/alg/tests/test_partial_sec_struct_assignment.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/coord_frame.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/coord_source.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/coord_group.hh:29, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/dcd_io.hh:28, from /<>/modules/io/tests/test_io_dcd.cc:23: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/io/tests/test_io_dcd.cc:21: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/merge_pairwise_alignments.hh:22, from /<>/modules/seq/alg/tests/test_merge_pairwise_alignments.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/seq/alg/tests/test_merge_pairwise_alignments.cc:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_struct.hh:25, from /<>/modules/mol/alg/tests/test_partial_sec_struct_assignment.cc:21: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_algobase.h:65, from /usr/include/c++/13/vector:62, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/alg/sec_struct.hh:22: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/pdb_reader.hh:28, from /<>/modules/mol/alg/tests/test_partial_sec_struct_assignment.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 92%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_sdf.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_sdf.cc.o -MF CMakeFiles/ost_io_tests.dir/test_io_sdf.cc.o.d -o CMakeFiles/ost_io_tests.dir/test_io_sdf.cc.o -c /<>/modules/io/tests/test_io_sdf.cc [ 92%] Linking CXX executable ../../../../tests/ost_mol_alg_tests cd /<>/obj-arm-linux-gnueabihf/modules/mol/alg/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_mol_alg_tests.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro CMakeFiles/ost_mol_alg_tests.dir/test_superposition.cc.o CMakeFiles/ost_mol_alg_tests.dir/tests.cc.o CMakeFiles/ost_mol_alg_tests.dir/test_consistency_checks.cc.o CMakeFiles/ost_mol_alg_tests.dir/test_partial_sec_struct_assignment.cc.o -o ../../../../tests/ost_mol_alg_tests -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib /usr/lib/arm-linux-gnueabihf/libboost_unit_test_framework.so.1.83.0 ../../../../stage/lib/libost_io.so.2.5.0 ../../../../stage/lib/libost_mol_alg.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_program_options.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_thread.so.1.83.0 ../../../../stage/lib/libost_seq_alg.so.2.5.0 ../../../../stage/lib/libost_img_alg.so.2.5.0 ../../../../stage/lib/libost_img.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so ../../../../stage/lib/libost_conop.so.2.5.0 ../../../../stage/lib/libost_db.so.2.5.0 ../../../../stage/lib/libost_seq.so.2.5.0 ../../../../stage/lib/libost_mol.so.2.5.0 ../../../../stage/lib/libost_info.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libsqlite3.so ../../../../stage/lib/libost_base.so.2.5.0 ../../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libtiff.so /usr/lib/arm-linux-gnueabihf/libpng.so /usr/lib/arm-linux-gnueabihf/libz.so make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 92%] Built target ost_mol_alg_tests make -f modules/gui/pymod/CMakeFiles/_ost_gui.dir/build.make modules/gui/pymod/CMakeFiles/_ost_gui.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/gui/pymod /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/gui/pymod /<>/obj-arm-linux-gnueabihf/modules/gui/pymod/CMakeFiles/_ost_gui.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/gui/pymod/CMakeFiles/_ost_gui.dir/build.make modules/gui/pymod/CMakeFiles/_ost_gui.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Nothing to be done for 'modules/gui/pymod/CMakeFiles/_ost_gui.dir/build'. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 94%] Built target _ost_gui make -f modules/conop/tests/CMakeFiles/ost_conop_tests_run.dir/build.make modules/conop/tests/CMakeFiles/ost_conop_tests_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/conop/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/conop/tests /<>/obj-arm-linux-gnueabihf/modules/conop/tests/CMakeFiles/ost_conop_tests_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/conop/tests/CMakeFiles/ost_conop_tests_run.dir/build.make modules/conop/tests/CMakeFiles/ost_conop_tests_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 94%] running checks for module conop cd /<>/modules/conop/tests && env OST_ROOT=/<>/obj-arm-linux-gnueabihf/stage /<>/obj-arm-linux-gnueabihf/tests/ost_conop_tests Running 18 test cases... unable to open database file unable to open database file unable to open database file unable to open database file unable to open database file unable to open database file unable to open database file unable to open database file unable to open database file *** No errors detected make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 94%] Built target ost_conop_tests_run make -f modules/gfx/tests/CMakeFiles/ost_gfx_tests_run.dir/build.make modules/gfx/tests/CMakeFiles/ost_gfx_tests_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/gfx/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/gfx/tests /<>/obj-arm-linux-gnueabihf/modules/gfx/tests/CMakeFiles/ost_gfx_tests_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/gfx/tests/CMakeFiles/ost_gfx_tests_run.dir/build.make modules/gfx/tests/CMakeFiles/ost_gfx_tests_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 94%] running checks for module gfx cd /<>/modules/gfx/tests && env OST_ROOT=/<>/obj-arm-linux-gnueabihf/stage /<>/obj-arm-linux-gnueabihf/tests/ost_gfx_tests In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/io/tests/test_io_sdf.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/io/tests/test_io_sdf.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 94%] Building CXX object modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/test_sequence_identity.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/test_sequence_identity.cc.o -MF CMakeFiles/ost_seq_alg_tests.dir/test_sequence_identity.cc.o.d -o CMakeFiles/ost_seq_alg_tests.dir/test_sequence_identity.cc.o -c /<>/modules/seq/alg/tests/test_sequence_identity.cc [ 94%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_sequence_profile.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_sequence_profile.cc.o -MF CMakeFiles/ost_io_tests.dir/test_io_sequence_profile.cc.o.d -o CMakeFiles/ost_io_tests.dir/test_io_sequence_profile.cc.o -c /<>/modules/io/tests/test_io_sequence_profile.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alg/sequence_identity.hh:26, from /<>/modules/seq/alg/tests/test_sequence_identity.cc:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/seq/alg/tests/test_sequence_identity.cc:24: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/alignment_handle.hh:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/load.hh:27, from /<>/modules/io/tests/test_io_sequence_profile.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/io/tests/test_io_sequence_profile.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 94%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_pir.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/test_pir.cc.o -MF CMakeFiles/ost_io_tests.dir/test_pir.cc.o.d -o CMakeFiles/ost_io_tests.dir/test_pir.cc.o -c /<>/modules/io/tests/test_pir.cc [ 95%] Building CXX object modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/tests.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/tests.cc.o -MF CMakeFiles/ost_seq_alg_tests.dir/tests.cc.o.d -o CMakeFiles/ost_seq_alg_tests.dir/tests.cc.o -c /<>/modules/seq/alg/tests/tests.cc [ 95%] Linking CXX executable ../../../../tests/ost_seq_alg_tests cd /<>/obj-arm-linux-gnueabihf/modules/seq/alg/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_seq_alg_tests.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro CMakeFiles/ost_seq_alg_tests.dir/test_distance_analysis.cc.o CMakeFiles/ost_seq_alg_tests.dir/test_merge_pairwise_alignments.cc.o CMakeFiles/ost_seq_alg_tests.dir/test_sequence_identity.cc.o CMakeFiles/ost_seq_alg_tests.dir/tests.cc.o -o ../../../../tests/ost_seq_alg_tests -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib /usr/lib/arm-linux-gnueabihf/libboost_unit_test_framework.so.1.83.0 ../../../../stage/lib/libost_io.so.2.5.0 ../../../../stage/lib/libost_mol_alg.so.2.5.0 ../../../../stage/lib/libost_seq_alg.so.2.5.0 ../../../../stage/lib/libost_conop.so.2.5.0 ../../../../stage/lib/libost_db.so.2.5.0 ../../../../stage/lib/libost_seq.so.2.5.0 ../../../../stage/lib/libost_mol.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libsqlite3.so /usr/lib/arm-linux-gnueabihf/libboost_program_options.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_thread.so.1.83.0 ../../../../stage/lib/libost_img_alg.so.2.5.0 ../../../../stage/lib/libost_img.so.2.5.0 ../../../../stage/lib/libost_info.so.2.5.0 ../../../../stage/lib/libost_base.so.2.5.0 ../../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libtiff.so /usr/lib/arm-linux-gnueabihf/libpng.so /usr/lib/arm-linux-gnueabihf/libz.so In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/pir_io_handler.hh:25, from /<>/modules/io/tests/test_pir.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/io/tests/test_pir.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 95%] Built target ost_seq_alg_tests make -f modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests_run.dir/build.make modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/mol/alg/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/mol/alg/tests /<>/obj-arm-linux-gnueabihf/modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests_run.dir/build.make modules/mol/alg/tests/CMakeFiles/ost_mol_alg_tests_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 95%] running checks for module mol_alg cd /<>/modules/mol/alg/tests && env OST_ROOT=/<>/obj-arm-linux-gnueabihf/stage /<>/obj-arm-linux-gnueabihf/tests/ost_mol_alg_tests Running 4 test cases... *** No errors detected make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 95%] Built target ost_mol_alg_tests_run make -f modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests_run.dir/build.make modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/seq/alg/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/seq/alg/tests /<>/obj-arm-linux-gnueabihf/modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests_run.dir/build.make modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 95%] running checks for module seq_alg cd /<>/modules/seq/alg/tests && env OST_ROOT=/<>/obj-arm-linux-gnueabihf/stage /<>/obj-arm-linux-gnueabihf/tests/ost_seq_alg_tests In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ Running 19 test cases... *** No errors detected make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 95%] Built target ost_seq_alg_tests_run make -f scripts/CMakeFiles/ost_scripts.dir/build.make scripts/CMakeFiles/ost_scripts.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/scripts /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/scripts /<>/obj-arm-linux-gnueabihf/scripts/CMakeFiles/ost_scripts.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f scripts/CMakeFiles/ost_scripts.dir/build.make scripts/CMakeFiles/ost_scripts.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -E copy_if_different ost_config /<>/obj-arm-linux-gnueabihf/stage/lib/openstructure/libexec/ost_config cd /<>/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -E copy_if_different ost /<>/obj-arm-linux-gnueabihf/stage/bin/ost cd /<>/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -E copy_if_different dng /<>/obj-arm-linux-gnueabihf/stage/bin/dng cd /<>/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -E copy_if_different ost_startup.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/ost_startup.py cd /<>/obj-arm-linux-gnueabihf/scripts && /usr/bin/cmake -E copy_if_different /<>/scripts/dng_startup.py /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages//ost/dng_startup.py make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 95%] Built target ost_scripts make -f modules/seq/alg/tests/CMakeFiles/test_aaindex.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_aaindex.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/seq/alg/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/seq/alg/tests /<>/obj-arm-linux-gnueabihf/modules/seq/alg/tests/CMakeFiles/test_aaindex.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/seq/alg/tests/CMakeFiles/test_aaindex.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_aaindex.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 95%] running checks test_aaindex.py cd /<>/modules/seq/alg/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/seq/alg/tests/test_aaindex.py" Compound library not available. Some functionality may not work as expected. . ---------------------------------------------------------------------- Ran 1 test in 0.103s OK make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 95%] Built target test_aaindex.py_run make -f modules/base/tests/CMakeFiles/test_stutil.py_run.dir/build.make modules/base/tests/CMakeFiles/test_stutil.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/base/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/base/tests /<>/obj-arm-linux-gnueabihf/modules/base/tests/CMakeFiles/test_stutil.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/base/tests/CMakeFiles/test_stutil.py_run.dir/build.make modules/base/tests/CMakeFiles/test_stutil.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 95%] running checks test_stutil.py cd /<>/modules/base/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/base/tests/test_stutil.py" Compound library not available. Some functionality may not work as expected. ...... ---------------------------------------------------------------------- Ran 6 tests in 0.001s OK make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 95%] Built target test_stutil.py_run make -f modules/base/tests/CMakeFiles/test_table.py_run.dir/build.make modules/base/tests/CMakeFiles/test_table.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/base/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/base/tests /<>/obj-arm-linux-gnueabihf/modules/base/tests/CMakeFiles/test_table.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/base/tests/CMakeFiles/test_table.py_run.dir/build.make modules/base/tests/CMakeFiles/test_table.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 95%] running checks test_table.py cd /<>/modules/base/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/base/tests/test_table.py" Compound library not available. Some functionality may not work as expected. .......................[ 95%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_iomanager.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/test_iomanager.cc.o -MF CMakeFiles/ost_io_tests.dir/test_iomanager.cc.o.d -o CMakeFiles/ost_io_tests.dir/test_iomanager.cc.o -c /<>/modules/io/tests/test_iomanager.cc .............../usr/lib/python3.12/unittest/case.py:589: ResourceWarning: unclosed file <_io.BufferedReader name='testfiles/enrichment-out.png'> if method() is not None: ResourceWarning: Enable tracemalloc to get the object allocation traceback ../usr/lib/python3/dist-packages/cycler/__init__.py:442: ResourceWarning: unclosed file <_io.BufferedReader name='testfiles/logroc-out.png'> out[k].append(d[k]) ResourceWarning: Enable tracemalloc to get the object allocation traceback /usr/lib/python3.12/unittest/case.py:589: ResourceWarning: unclosed file <_io.BufferedReader name='testfiles/roc-out.png'> if method() is not None: ResourceWarning: Enable tracemalloc to get the object allocation traceback ./usr/lib/python3.12/unittest/case.py:589: ResourceWarning: unclosed file <_io.BufferedReader name='testfiles/roc-same-val-out.png'> if method() is not None: ResourceWarning: Enable tracemalloc to get the object allocation traceback ................./<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ost/table.py:2186: DeprecationWarning: scipy.isnan is deprecated and will be removed in SciPy 2.0.0, use numpy.isnan instead if scipy.isnan(correl): ......................... ---------------------------------------------------------------------- Ran 83 tests in 2.648s OK make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 95%] Built target test_table.py_run make -f modules/base/tests/CMakeFiles/test_log.py_run.dir/build.make modules/base/tests/CMakeFiles/test_log.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/base/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/base/tests /<>/obj-arm-linux-gnueabihf/modules/base/tests/CMakeFiles/test_log.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/base/tests/CMakeFiles/test_log.py_run.dir/build.make modules/base/tests/CMakeFiles/test_log.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 96%] running checks test_log.py cd /<>/modules/base/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/base/tests/test_log.py" Compound library not available. Some functionality may not work as expected. .... ---------------------------------------------------------------------- Ran 4 tests in 0.001s OK make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 96%] Built target test_log.py_run make -f modules/bindings/tests/CMakeFiles/test_msms.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_msms.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/bindings/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/bindings/tests /<>/obj-arm-linux-gnueabihf/modules/bindings/tests/CMakeFiles/test_msms.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/bindings/tests/CMakeFiles/test_msms.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_msms.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 96%] running checks test_msms.py cd /<>/modules/bindings/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/bindings/tests/test_msms.py" Compound library not available. Some functionality may not work as expected. /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ost/mol/alg/trajectory_analysis.py:59: SyntaxWarning: invalid escape sequence '\ ' """ /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ost/mol/alg/trajectory_analysis.py:98: SyntaxWarning: invalid escape sequence '\ ' """ /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ost/mol/alg/trajectory_analysis.py:141: SyntaxWarning: invalid escape sequence '\ ' """ /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ost/mol/alg/trajectory_analysis.py:174: SyntaxWarning: invalid escape sequence '\ ' """ /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ost/mol/alg/trajectory_analysis.py:233: SyntaxWarning: invalid escape sequence '\ ' """ /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ost/mol/alg/structure_analysis.py:65: SyntaxWarning: invalid escape sequence '\ ' """ /<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ost/mol/alg/structure_analysis.py:157: SyntaxWarning: invalid escape sequence '\ ' """ Could not find msms executable: ignoring unit tests make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 96%] Built target test_msms.py_run make -f modules/bindings/tests/CMakeFiles/test_clustalw.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_clustalw.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/bindings/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/bindings/tests /<>/obj-arm-linux-gnueabihf/modules/bindings/tests/CMakeFiles/test_clustalw.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/bindings/tests/CMakeFiles/test_clustalw.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_clustalw.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 96%] running checks test_clustalw.py cd /<>/modules/bindings/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/bindings/tests/test_clustalw.py" Compound library not available. Some functionality may not work as expected. [ 96%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/tests.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/tests.cc.o -MF CMakeFiles/ost_io_tests.dir/tests.cc.o.d -o CMakeFiles/ost_io_tests.dir/tests.cc.o -c /<>/modules/io/tests/tests.cc .In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/seq/sequence_io_handler.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/io_manager.hh:28, from /<>/modules/io/tests/test_iomanager.cc:22: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/io/tests/test_iomanager.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ .....In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ . ---------------------------------------------------------------------- Ran 7 tests in 1.866s OK make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 96%] Built target test_clustalw.py_run make -f modules/bindings/tests/CMakeFiles/test_hhblits.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_hhblits.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/bindings/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/bindings/tests /<>/obj-arm-linux-gnueabihf/modules/bindings/tests/CMakeFiles/test_hhblits.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/bindings/tests/CMakeFiles/test_hhblits.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_hhblits.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 96%] running checks test_hhblits.py cd /<>/modules/bindings/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/bindings/tests/test_hhblits.py" Compound library not available. Some functionality may not work as expected. No HHblits installation found: skip unit tests make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 96%] Built target test_hhblits.py_run make -f modules/bindings/tests/CMakeFiles/test_blast.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_blast.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/bindings/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/bindings/tests /<>/obj-arm-linux-gnueabihf/modules/bindings/tests/CMakeFiles/test_blast.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/bindings/tests/CMakeFiles/test_blast.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_blast.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 96%] running checks test_blast.py cd /<>/modules/bindings/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/bindings/tests/test_blast.py" /<>/modules/bindings/tests/test_blast.py:81: SyntaxWarning: invalid escape sequence '\d' re_v = re.compile('\d+\.\d+\.\d+') Compound library not available. Some functionality may not work as expected. Could not find blast executable: ignoring unit tests make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 96%] Built target test_blast.py_run make -f modules/bindings/tests/CMakeFiles/test_kclust.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_kclust.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/bindings/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/bindings/tests /<>/obj-arm-linux-gnueabihf/modules/bindings/tests/CMakeFiles/test_kclust.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/bindings/tests/CMakeFiles/test_kclust.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_kclust.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 97%] running checks test_kclust.py cd /<>/modules/bindings/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/bindings/tests/test_kclust.py" [ 97%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_star_parser.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/test_star_parser.cc.o -MF CMakeFiles/ost_io_tests.dir/test_star_parser.cc.o.d -o CMakeFiles/ost_io_tests.dir/test_star_parser.cc.o -c /<>/modules/io/tests/test_star_parser.cc Compound library not available. Some functionality may not work as expected. Could not find kClust executable: ignoring unit tests make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 97%] Built target test_kclust.py_run make -f modules/bindings/tests/CMakeFiles/test_naccess.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_naccess.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/bindings/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/bindings/tests /<>/obj-arm-linux-gnueabihf/modules/bindings/tests/CMakeFiles/test_naccess.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/bindings/tests/CMakeFiles/test_naccess.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_naccess.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 97%] running checks test_naccess.py cd /<>/modules/bindings/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/bindings/tests/test_naccess.py" Compound library not available. Some functionality may not work as expected. Could not find NACCESS, could not test binding... make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 97%] Built target test_naccess.py_run make -f modules/bindings/tests/CMakeFiles/test_cadscore.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_cadscore.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/bindings/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/bindings/tests /<>/obj-arm-linux-gnueabihf/modules/bindings/tests/CMakeFiles/test_cadscore.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/bindings/tests/CMakeFiles/test_cadscore.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_cadscore.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 98%] running checks test_cadscore.py cd /<>/modules/bindings/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/bindings/tests/test_cadscore.py" Compound library not available. Some functionality may not work as expected. .[ 98%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_mmcif_reader.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/test_mmcif_reader.cc.o -MF CMakeFiles/ost_io_tests.dir/test_mmcif_reader.cc.o.d -o CMakeFiles/ost_io_tests.dir/test_mmcif_reader.cc.o -c /<>/modules/io/tests/test_mmcif_reader.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/entity_handle.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/mol.hh:22, from /<>/modules/io/tests/test_star_parser.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/io/tests/test_star_parser.cc:23: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/mmcif_reader.hh:24, from /<>/modules/io/tests/test_mmcif_reader.cc:26: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/io/tests/test_mmcif_reader.cc:21: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/mmcif_reader.hh:25: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 98%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_mmcif_info.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/test_mmcif_info.cc.o -MF CMakeFiles/ost_io_tests.dir/test_mmcif_info.cc.o.d -o CMakeFiles/ost_io_tests.dir/test_mmcif_info.cc.o -c /<>/modules/io/tests/test_mmcif_info.cc In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:23, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/mol/mmcif_info.hh:25, from /<>/modules/io/tests/test_mmcif_info.cc:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/impl/sequence_list_iterator.hh:32:17: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 32 | : public std::iterator{ | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/io/tests/test_mmcif_info.cc:21: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query_state.hh:26, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/query.hh:39, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/mol/residue_view.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_handle.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/seq/sequence_list.hh:24: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ . ---------------------------------------------------------------------- Ran 2 tests in 39.985s OK Could not find CAD score classic executables: ignoring unit tests make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 98%] Built target test_cadscore.py_run make -f modules/bindings/tests/CMakeFiles/test_tmtools.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_tmtools.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/bindings/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/bindings/tests /<>/obj-arm-linux-gnueabihf/modules/bindings/tests/CMakeFiles/test_tmtools.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/bindings/tests/CMakeFiles/test_tmtools.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_tmtools.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 98%] running checks test_tmtools.py cd /<>/modules/bindings/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/bindings/tests/test_tmtools.py" Compound library not available. Some functionality may not work as expected. ... ---------------------------------------------------------------------- Ran 3 tests in 0.514s OK Could not find tmalign executable: ignoring unit tests Could not find tmalign executable: ignoring unit tests make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 98%] Built target test_tmtools.py_run make -f modules/bindings/tests/CMakeFiles/test_ialign.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_ialign.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/bindings/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/bindings/tests /<>/obj-arm-linux-gnueabihf/modules/bindings/tests/CMakeFiles/test_ialign.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/bindings/tests/CMakeFiles/test_ialign.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_ialign.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 98%] running checks test_ialign.py cd /<>/modules/bindings/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/bindings/tests/test_ialign.py" Compound library not available. Some functionality may not work as expected. . ---------------------------------------------------------------------- Ran 1 test in 0.034s OK Could not find ialign master perl script: ignoring unit tests make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 98%] Built target test_ialign.py_run make -f modules/bindings/tests/CMakeFiles/test_lga.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_lga.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/bindings/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/bindings/tests /<>/obj-arm-linux-gnueabihf/modules/bindings/tests/CMakeFiles/test_lga.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/bindings/tests/CMakeFiles/test_lga.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_lga.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 98%] running checks test_lga.py cd /<>/modules/bindings/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/bindings/tests/test_lga.py" Compound library not available. Some functionality may not work as expected. . ---------------------------------------------------------------------- Ran 1 test in 0.042s OK Could not find lga executable: ignoring unit tests make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 98%] Built target test_lga.py_run make -f modules/bindings/tests/CMakeFiles/test_hbplus.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_hbplus.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/bindings/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/bindings/tests /<>/obj-arm-linux-gnueabihf/modules/bindings/tests/CMakeFiles/test_hbplus.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/bindings/tests/CMakeFiles/test_hbplus.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_hbplus.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 98%] running checks test_hbplus.py cd /<>/modules/bindings/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/bindings/tests/test_hbplus.py" Compound library not available. Some functionality may not work as expected. Could not find hbplus, could not test binding... make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 98%] Built target test_hbplus.py_run make -f modules/bindings/tests/CMakeFiles/test_dockq.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_dockq.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/bindings/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/bindings/tests /<>/obj-arm-linux-gnueabihf/modules/bindings/tests/CMakeFiles/test_dockq.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/bindings/tests/CMakeFiles/test_dockq.py_run.dir/build.make modules/bindings/tests/CMakeFiles/test_dockq.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 98%] running checks test_dockq.py cd /<>/modules/bindings/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/bindings/tests/test_dockq.py" Compound library not available. Some functionality may not work as expected. Could not find DockQ.py, could not test binding... make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 98%] Built target test_dockq.py_run make -f modules/conop/tests/CMakeFiles/test_processor.py_run.dir/build.make modules/conop/tests/CMakeFiles/test_processor.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/conop/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/conop/tests /<>/obj-arm-linux-gnueabihf/modules/conop/tests/CMakeFiles/test_processor.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/conop/tests/CMakeFiles/test_processor.py_run.dir/build.make modules/conop/tests/CMakeFiles/test_processor.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 98%] running checks test_processor.py cd /<>/modules/conop/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/conop/tests/test_processor.py" Compound library not available. Some functionality may not work as expected. . ---------------------------------------------------------------------- Ran 1 test in 0.001s OK make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 98%] Built target test_processor.py_run make -f modules/db/tests/CMakeFiles/test_linear_db.py_run.dir/build.make modules/db/tests/CMakeFiles/test_linear_db.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/db/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/db/tests /<>/obj-arm-linux-gnueabihf/modules/db/tests/CMakeFiles/test_linear_db.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/db/tests/CMakeFiles/test_linear_db.py_run.dir/build.make modules/db/tests/CMakeFiles/test_linear_db.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 98%] running checks test_linear_db.py cd /<>/modules/db/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/db/tests/test_linear_db.py" Compound library not available. Some functionality may not work as expected. ... ---------------------------------------------------------------------- Ran 3 tests in 0.004s OK make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 98%] Built target test_linear_db.py_run make -f modules/geom/tests/CMakeFiles/test_geom.py_run.dir/build.make modules/geom/tests/CMakeFiles/test_geom.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/geom/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/geom/tests /<>/obj-arm-linux-gnueabihf/modules/geom/tests/CMakeFiles/test_geom.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/geom/tests/CMakeFiles/test_geom.py_run.dir/build.make modules/geom/tests/CMakeFiles/test_geom.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 98%] running checks test_geom.py cd /<>/modules/geom/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/geom/tests/test_geom.py" Compound library not available. Some functionality may not work as expected. ........ ---------------------------------------------------------------------- Ran 8 tests in 0.004s OK make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 98%] Built target test_geom.py_run make -f modules/gfx/tests/CMakeFiles/test_gfx.py_run.dir/build.make modules/gfx/tests/CMakeFiles/test_gfx.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/gfx/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/gfx/tests /<>/obj-arm-linux-gnueabihf/modules/gfx/tests/CMakeFiles/test_gfx.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/gfx/tests/CMakeFiles/test_gfx.py_run.dir/build.make modules/gfx/tests/CMakeFiles/test_gfx.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 98%] running checks test_gfx.py cd /<>/modules/gfx/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/gfx/tests/test_gfx.py" Compound library not available. Some functionality may not work as expected. ...... ---------------------------------------------------------------------- Ran 6 tests in 0.002s OK make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 98%] Built target test_gfx.py_run make -f modules/io/tests/CMakeFiles/test_io_pdb.py_run.dir/build.make modules/io/tests/CMakeFiles/test_io_pdb.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/io/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/io/tests /<>/obj-arm-linux-gnueabihf/modules/io/tests/CMakeFiles/test_io_pdb.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/io/tests/CMakeFiles/test_io_pdb.py_run.dir/build.make modules/io/tests/CMakeFiles/test_io_pdb.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 98%] running checks test_io_pdb.py cd /<>/modules/io/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/io/tests/test_io_pdb.py" Compound library not available. Some functionality may not work as expected. ....s ---------------------------------------------------------------------- Ran 5 tests in 0.005s OK (skipped=1) make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [ 98%] Built target test_io_pdb.py_run make -f modules/io/tests/CMakeFiles/test_io_mmcif.py_run.dir/build.make modules/io/tests/CMakeFiles/test_io_mmcif.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/io/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/io/tests /<>/obj-arm-linux-gnueabihf/modules/io/tests/CMakeFiles/test_io_mmcif.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/io/tests/CMakeFiles/test_io_mmcif.py_run.dir/build.make modules/io/tests/CMakeFiles/test_io_mmcif.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [ 98%] running checks test_io_mmcif.py cd /<>/modules/io/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/io/tests/test_io_mmcif.py" Compound library not available. Some functionality may not work as expected. SEQRES import requires a valid compound library to handle non standard compounds. Their One letter codes will be set to X. SEQRES import requires a valid compound library to handle non standard compounds. Their One letter codes will be set to X. No citation for identifier '1' found. Couldn't set author list. ..SEQRES import requires a valid compound library to handle non standard compounds. Their One letter codes will be set to X. [100%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_img.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_img.cc.o -MF CMakeFiles/ost_io_tests.dir/test_io_img.cc.o.d -o CMakeFiles/ost_io_tests.dir/test_io_img.cc.o -c /<>/modules/io/tests/test_io_img.cc .SEQRES import requires a valid compound library to handle non standard compounds. Their One letter codes will be set to X. unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'LYZ' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'LYZ' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'LYZ' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'LYZ' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'LYZ' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'LYZ' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'LYZ' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'LYZ' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'LYZ' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'LYZ' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'LYZ' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' unknown residue 'HYP' in SEQRES record. Setting one-letter-code to 'X' .SEQRES import requires a valid compound library to handle non standard compounds. Their One letter codes will be set to X. ......s ---------------------------------------------------------------------- Ran 11 tests in 1.461s OK (skipped=1) [100%] Building CXX object modules/io/tests/CMakeFiles/ost_io_tests.dir/test_exceptions.cc.o cd /<>/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/c++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_IOSTREAMS_DYN_LINK -DBOOST_IOSTREAMS_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DBOOST_THREAD_DYN_LINK -DBOOST_THREAD_NO_LIB -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<>/obj-arm-linux-gnueabihf/stage/include -I/usr/include/eigen3 -isystem /usr/include/arm-linux-gnueabihf/qt5 -isystem /usr/include/arm-linux-gnueabihf/qt5/QtXml -isystem /usr/include/arm-linux-gnueabihf/qt5/QtCore -isystem /usr/lib/arm-linux-gnueabihf/qt5/mkspecs/linux-g++ -isystem /usr/include/arm-linux-gnueabihf/qt5/QtGui -isystem /usr/include/arm-linux-gnueabihf/qt5/QtWidgets -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/test_exceptions.cc.o -MF CMakeFiles/ost_io_tests.dir/test_exceptions.cc.o.d -o CMakeFiles/ost_io_tests.dir/test_exceptions.cc.o -c /<>/modules/io/tests/test_exceptions.cc make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target test_io_mmcif.py_run make -f modules/io/tests/CMakeFiles/test_io_omf.py_run.dir/build.make modules/io/tests/CMakeFiles/test_io_omf.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/io/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/io/tests /<>/obj-arm-linux-gnueabihf/modules/io/tests/CMakeFiles/test_io_omf.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/io/tests/CMakeFiles/test_io_omf.py_run.dir/build.make modules/io/tests/CMakeFiles/test_io_omf.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [100%] running checks test_io_omf.py cd /<>/modules/io/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/io/tests/test_io_omf.py" Compound library not available. Some functionality may not work as expected. No compound library available. Ignoring test_stereochemistry.py tests. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target test_io_omf.py_run make -f modules/io/tests/CMakeFiles/test_io_sdf.py_run.dir/build.make modules/io/tests/CMakeFiles/test_io_sdf.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/io/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/io/tests /<>/obj-arm-linux-gnueabihf/modules/io/tests/CMakeFiles/test_io_sdf.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/io/tests/CMakeFiles/test_io_sdf.py_run.dir/build.make modules/io/tests/CMakeFiles/test_io_sdf.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [100%] running checks test_io_sdf.py cd /<>/modules/io/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/io/tests/test_io_sdf.py" Compound library not available. Some functionality may not work as expected. ... ---------------------------------------------------------------------- Ran 3 tests in 0.008s OK make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target test_io_sdf.py_run make -f modules/mol/base/tests/CMakeFiles/test_invalid.py_run.dir/build.make modules/mol/base/tests/CMakeFiles/test_invalid.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/mol/base/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/mol/base/tests /<>/obj-arm-linux-gnueabihf/modules/mol/base/tests/CMakeFiles/test_invalid.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/mol/base/tests/CMakeFiles/test_invalid.py_run.dir/build.make modules/mol/base/tests/CMakeFiles/test_invalid.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [100%] running checks test_invalid.py cd /<>/modules/mol/base/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/mol/base/tests/test_invalid.py" Compound library not available. Some functionality may not work as expected. ....... ---------------------------------------------------------------------- Ran 7 tests in 0.004s OK make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target test_invalid.py_run make -f modules/mol/alg/tests/CMakeFiles/test_pdbize.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_pdbize.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/mol/alg/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/mol/alg/tests /<>/obj-arm-linux-gnueabihf/modules/mol/alg/tests/CMakeFiles/test_pdbize.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/mol/alg/tests/CMakeFiles/test_pdbize.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_pdbize.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [100%] running checks test_pdbize.py cd /<>/modules/mol/alg/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/mol/alg/tests/test_pdbize.py" Compound library not available. Some functionality may not work as expected. ........ ---------------------------------------------------------------------- Ran 8 tests in 0.010s OK make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target test_pdbize.py_run make -f modules/mol/alg/tests/CMakeFiles/test_convenient_superpose.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_convenient_superpose.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/mol/alg/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/mol/alg/tests /<>/obj-arm-linux-gnueabihf/modules/mol/alg/tests/CMakeFiles/test_convenient_superpose.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/mol/alg/tests/CMakeFiles/test_convenient_superpose.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_convenient_superpose.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [100%] running checks test_convenient_superpose.py cd /<>/modules/mol/alg/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/mol/alg/tests/test_convenient_superpose.py" Compound library not available. Some functionality may not work as expected. ...In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/map.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/load_map.hh:24, from /<>/modules/io/tests/test_io_img.cc:29: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/io/tests/test_io_img.cc:20: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ ...... ---------------------------------------------------------------------- Ran 9 tests in 2.705s OK make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target test_convenient_superpose.py_run make -f modules/mol/alg/tests/CMakeFiles/test_hbond.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_hbond.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/mol/alg/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/mol/alg/tests /<>/obj-arm-linux-gnueabihf/modules/mol/alg/tests/CMakeFiles/test_hbond.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/mol/alg/tests/CMakeFiles/test_hbond.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_hbond.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [100%] running checks test_hbond.py cd /<>/modules/mol/alg/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/mol/alg/tests/test_hbond.py" Compound library not available. Some functionality may not work as expected. .. ---------------------------------------------------------------------- Ran 2 tests in 0.029s OK In file included from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite2.hh:27, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/composite.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/geom.hh:28, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/vecmat.hh:33, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/point.hh:35, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/image.hh:34, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/img/map.hh:22, from /<>/obj-arm-linux-gnueabihf/stage/include/ost/io/img/load_map.hh:24, from /<>/modules/io/tests/test_exceptions.cc:27: /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:25:41: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 25 | class const_circular_iter : public std::iterator | ^~~~~~~~ In file included from /usr/include/c++/13/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/13/string:47, from /usr/include/boost/test/utils/basic_cstring/bcs_char_traits.hpp:25, from /usr/include/boost/test/utils/basic_cstring/basic_cstring.hpp:21, from /usr/include/boost/test/detail/global_typedef.hpp:15, from /usr/include/boost/test/tools/detail/print_helper.hpp:20, from /usr/include/boost/test/utils/lazy_ostream.hpp:16, from /usr/include/boost/test/tools/context.hpp:19, from /usr/include/boost/test/test_tools.hpp:42, from /usr/include/boost/test/unit_test.hpp:18, from /<>/modules/io/tests/test_exceptions.cc:25: /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /<>/obj-arm-linux-gnueabihf/stage/include/ost/geom/circular_iterator.hh:100:35: warning: ‘template struct std::iterator’ is deprecated [-Wdeprecated-declarations] 100 | class circular_iter : public std::iterator | ^~~~~~~~ /usr/include/c++/13/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target test_hbond.py_run make -f modules/mol/alg/tests/CMakeFiles/test_accessibility.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_accessibility.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/mol/alg/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/mol/alg/tests /<>/obj-arm-linux-gnueabihf/modules/mol/alg/tests/CMakeFiles/test_accessibility.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/mol/alg/tests/CMakeFiles/test_accessibility.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_accessibility.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [100%] running checks test_accessibility.py cd /<>/modules/mol/alg/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/mol/alg/tests/test_accessibility.py" Compound library not available. Some functionality may not work as expected. smake -f modules/mol/alg/tests/CMakeFiles/test_sec_struct.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_sec_struct.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/mol/alg/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/mol/alg/tests /<>/obj-arm-linux-gnueabihf/modules/mol/alg/tests/CMakeFiles/test_sec_struct.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/mol/alg/tests/CMakeFiles/test_sec_struct.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_sec_struct.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [100%] running checks test_sec_struct.py cd /<>/modules/mol/alg/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/mol/alg/tests/test_sec_struct.py" Compound library not available. Some functionality may not work as expected. .s ---------------------------------------------------------------------- Ran 2 tests in 0.000s OK (skipped=1) make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target test_sec_struct.py_run make -f modules/mol/alg/tests/CMakeFiles/test_lddt.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_lddt.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/mol/alg/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/mol/alg/tests /<>/obj-arm-linux-gnueabihf/modules/mol/alg/tests/CMakeFiles/test_lddt.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/mol/alg/tests/CMakeFiles/test_lddt.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_lddt.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [100%] running checks test_lddt.py cd /<>/modules/mol/alg/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/mol/alg/tests/test_lddt.py" Compound library not available. Some functionality may not work as expected. No compound library available. Ignoring test_lddt.py tests. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target test_lddt.py_run make -f modules/mol/alg/tests/CMakeFiles/test_qsscore.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_qsscore.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/mol/alg/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/mol/alg/tests /<>/obj-arm-linux-gnueabihf/modules/mol/alg/tests/CMakeFiles/test_qsscore.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/mol/alg/tests/CMakeFiles/test_qsscore.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_qsscore.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [100%] running checks test_qsscore.py cd /<>/modules/mol/alg/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/mol/alg/tests/test_qsscore.py" Compound library not available. Some functionality may not work as expected. No compound lib available. Ignoring test_qsscore.py tests. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target test_qsscore.py_run make -f modules/mol/alg/tests/CMakeFiles/test_stereochemistry.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_stereochemistry.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/mol/alg/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/mol/alg/tests /<>/obj-arm-linux-gnueabihf/modules/mol/alg/tests/CMakeFiles/test_stereochemistry.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/mol/alg/tests/CMakeFiles/test_stereochemistry.py_run.dir/build.make modules/mol/alg/tests/CMakeFiles/test_stereochemistry.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [100%] running checks test_stereochemistry.py cd /<>/modules/mol/alg/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/mol/alg/tests/test_stereochemistry.py" Compound library not available. Some functionality may not work as expected. No compound library available. Ignoring test_stereochemistry.py tests. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target test_stereochemistry.py_run make -f modules/seq/base/tests/CMakeFiles/test_seq.py_run.dir/build.make modules/seq/base/tests/CMakeFiles/test_seq.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/seq/base/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/seq/base/tests /<>/obj-arm-linux-gnueabihf/modules/seq/base/tests/CMakeFiles/test_seq.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/seq/base/tests/CMakeFiles/test_seq.py_run.dir/build.make modules/seq/base/tests/CMakeFiles/test_seq.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [100%] running checks test_seq.py cd /<>/modules/seq/base/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/seq/base/tests/test_seq.py" Compound library not available. Some functionality may not work as expected. . ---------------------------------------------------------------------- Ran 2 tests in 6.429s OK (skipped=1) Could not find NACCESS, could not compare Accessiblity function... make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target test_accessibility.py_run make -f modules/seq/alg/tests/CMakeFiles/test_renumber.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_renumber.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/seq/alg/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/seq/alg/tests /<>/obj-arm-linux-gnueabihf/modules/seq/alg/tests/CMakeFiles/test_renumber.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/seq/alg/tests/CMakeFiles/test_renumber.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_renumber.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [100%] running checks test_renumber.py cd /<>/modules/seq/alg/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/seq/alg/tests/test_renumber.py" .............. ---------------------------------------------------------------------- Ran 14 tests in 0.010s OK Compound library not available. Some functionality may not work as expected. make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target test_seq.py_run make -f modules/seq/alg/tests/CMakeFiles/test_local_align.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_local_align.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/seq/alg/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/seq/alg/tests /<>/obj-arm-linux-gnueabihf/modules/seq/alg/tests/CMakeFiles/test_local_align.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/seq/alg/tests/CMakeFiles/test_local_align.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_local_align.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [100%] running checks test_local_align.py cd /<>/modules/seq/alg/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/seq/alg/tests/test_local_align.py" Compound library not available. Some functionality may not work as expected. ........ ---------------------------------------------------------------------- Ran 8 tests in 0.076s OK make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target test_renumber.py_run make -f modules/seq/alg/tests/CMakeFiles/test_global_align.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_global_align.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/seq/alg/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/seq/alg/tests /<>/obj-arm-linux-gnueabihf/modules/seq/alg/tests/CMakeFiles/test_global_align.py_run.dir/DependInfo.cmake "--color=" ... ---------------------------------------------------------------------- Ran 3 tests in 0.001s OK make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/seq/alg/tests/CMakeFiles/test_global_align.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_global_align.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [100%] running checks test_global_align.py cd /<>/modules/seq/alg/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/seq/alg/tests/test_global_align.py" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target test_local_align.py_run make -f modules/seq/alg/tests/CMakeFiles/test_semiglobal_align.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_semiglobal_align.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/seq/alg/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/seq/alg/tests /<>/obj-arm-linux-gnueabihf/modules/seq/alg/tests/CMakeFiles/test_semiglobal_align.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/seq/alg/tests/CMakeFiles/test_semiglobal_align.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_semiglobal_align.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [100%] running checks test_semiglobal_align.py cd /<>/modules/seq/alg/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/seq/alg/tests/test_semiglobal_align.py" Compound library not available. Some functionality may not work as expected. Compound library not available. Some functionality may not work as expected. [100%] Linking CXX executable ../../../tests/ost_io_tests cd /<>/obj-arm-linux-gnueabihf/modules/io/tests && /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_io_tests.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fno-stack-clash-protection -fdebug-prefix-map=/<>=/usr/src/openstructure-2.5.0-1ubuntu5 -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=3 -Wall -Wno-attributes -O3 -DNDEBUG -fno-strict-aliasing -Wl,-Bsymbolic-functions -Wl,-z,relro CMakeFiles/ost_io_tests.dir/test_clustal.cc.o CMakeFiles/ost_io_tests.dir/test_io_pdb.cc.o CMakeFiles/ost_io_tests.dir/test_io_crd.cc.o CMakeFiles/ost_io_tests.dir/test_io_dcd.cc.o CMakeFiles/ost_io_tests.dir/test_io_sdf.cc.o CMakeFiles/ost_io_tests.dir/test_io_sequence_profile.cc.o CMakeFiles/ost_io_tests.dir/test_pir.cc.o CMakeFiles/ost_io_tests.dir/test_iomanager.cc.o CMakeFiles/ost_io_tests.dir/tests.cc.o CMakeFiles/ost_io_tests.dir/test_star_parser.cc.o CMakeFiles/ost_io_tests.dir/test_mmcif_reader.cc.o CMakeFiles/ost_io_tests.dir/test_mmcif_info.cc.o CMakeFiles/ost_io_tests.dir/test_io_img.cc.o CMakeFiles/ost_io_tests.dir/test_exceptions.cc.o -o ../../../tests/ost_io_tests -L/<>/obj-arm-linux-gnueabihf/stage/lib -Wl,-rpath,/<>/obj-arm-linux-gnueabihf/stage/lib /usr/lib/arm-linux-gnueabihf/libboost_unit_test_framework.so.1.83.0 ../../../stage/lib/libost_io.so.2.5.0 ../../../stage/lib/libost_mol_alg.so.2.5.0 ../../../stage/lib/libost_conop.so.2.5.0 ../../../stage/lib/libost_db.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libsqlite3.so /usr/lib/arm-linux-gnueabihf/libboost_program_options.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_thread.so.1.83.0 ../../../stage/lib/libost_seq_alg.so.2.5.0 ../../../stage/lib/libost_seq.so.2.5.0 ../../../stage/lib/libost_mol.so.2.5.0 ../../../stage/lib/libost_img_alg.so.2.5.0 ../../../stage/lib/libost_img.so.2.5.0 ../../../stage/lib/libost_info.so.2.5.0 ../../../stage/lib/libost_base.so.2.5.0 ../../../stage/lib/libost_geom.so.2.5.0 /usr/lib/arm-linux-gnueabihf/libboost_filesystem.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_atomic.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_system.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libboost_regex.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libQt5Xml.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Widgets.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Gui.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libQt5Core.so.5.15.13 /usr/lib/arm-linux-gnueabihf/libfftw3f.so /usr/lib/arm-linux-gnueabihf/libfftw3f_threads.so /usr/lib/arm-linux-gnueabihf/libboost_iostreams.so.1.83.0 /usr/lib/arm-linux-gnueabihf/libtiff.so /usr/lib/arm-linux-gnueabihf/libpng.so /usr/lib/arm-linux-gnueabihf/libz.so ... ---------------------------------------------------------------------- Ran 3 tests in 0.002s OK . ---------------------------------------------------------------------- Ran 1 test in 0.001s OK make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target test_global_align.py_run make -f modules/seq/alg/tests/CMakeFiles/test_weight_matrix.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_weight_matrix.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/seq/alg/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/seq/alg/tests /<>/obj-arm-linux-gnueabihf/modules/seq/alg/tests/CMakeFiles/test_weight_matrix.py_run.dir/DependInfo.cmake "--color=" [100%] Built target test_semiglobal_align.py_run make -f modules/seq/alg/tests/CMakeFiles/test_alignment_from_chain_view.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_alignment_from_chain_view.py_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/seq/alg/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/seq/alg/tests /<>/obj-arm-linux-gnueabihf/modules/seq/alg/tests/CMakeFiles/test_alignment_from_chain_view.py_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/seq/alg/tests/CMakeFiles/test_weight_matrix.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_weight_matrix.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/seq/alg/tests/CMakeFiles/test_alignment_from_chain_view.py_run.dir/build.make modules/seq/alg/tests/CMakeFiles/test_alignment_from_chain_view.py_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [100%] running checks test_weight_matrix.py cd /<>/modules/seq/alg/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/seq/alg/tests/test_weight_matrix.py" [100%] running checks test_alignment_from_chain_view.py cd /<>/modules/seq/alg/tests && sh -c "PYTHONPATH=/<>/obj-arm-linux-gnueabihf/stage/lib/python3.12/dist-packages/ /usr/bin/python3 /<>/modules/seq/alg/tests/test_alignment_from_chain_view.py" Compound library not available. Some functionality may not work as expected. Compound library not available. Some functionality may not work as expected. . ---------------------------------------------------------------------- Ran 1 test in 0.003s OK make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target test_alignment_from_chain_view.py_run .. ---------------------------------------------------------------------- Ran 2 tests in 0.001s OK make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target test_weight_matrix.py_run make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target ost_io_tests make -f modules/io/tests/CMakeFiles/ost_io_tests_run.dir/build.make modules/io/tests/CMakeFiles/ost_io_tests_run.dir/depend make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' cd /<>/obj-arm-linux-gnueabihf && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/modules/io/tests /<>/obj-arm-linux-gnueabihf /<>/obj-arm-linux-gnueabihf/modules/io/tests /<>/obj-arm-linux-gnueabihf/modules/io/tests/CMakeFiles/ost_io_tests_run.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' make -f modules/io/tests/CMakeFiles/ost_io_tests_run.dir/build.make modules/io/tests/CMakeFiles/ost_io_tests_run.dir/build make[4]: Entering directory '/<>/obj-arm-linux-gnueabihf' [100%] running checks for module io cd /<>/modules/io/tests && env OST_ROOT=/<>/obj-arm-linux-gnueabihf/stage /<>/obj-arm-linux-gnueabihf/tests/ost_io_tests Running 161 test cases... unable to open database file WARNING: skipping SEQRES import unit test. Compound lib is required unable to open database file WARNING: skipping mmcif_convert_seqres unit test. Compound library is required unable to open database file WARNING: skipping mmcif_entity_poly_tests unit test. Compound library is required unable to open database file *** No errors detected make[4]: Leaving directory '/<>/obj-arm-linux-gnueabihf' [100%] Built target ost_io_tests_run E: Build killed with signal TERM after 150 minutes of inactivity -------------------------------------------------------------------------------- Build finished at 2024-05-14T04:23:00Z Finished -------- +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested E: Build failure (dpkg-buildpackage died) +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: armhf Build Type: any Build-Space: 2039180 Build-Time: 11397 Distribution: oracular Fail-Stage: build Host Architecture: armhf Install-Time: 139 Job: openstructure_2.5.0-1ubuntu5.dsc Machine Architecture: arm64 Package: openstructure Package-Time: 11545 Source-Version: 2.5.0-1ubuntu5 Space: 2039180 Status: attempted Version: 2.5.0-1ubuntu5 -------------------------------------------------------------------------------- Finished at 2024-05-14T04:23:00Z Build needed 03:12:25, 2039180k disk space E: Build failure (dpkg-buildpackage died) RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=oracular --arch=armhf PACKAGEBUILD-28432901 Scanning for processes to kill in build PACKAGEBUILD-28432901