https://launchpad.net/ubuntu/+source/vienna-rna/2.5.1+dfsg-1build3/+build/27999132 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux bos03-riscv64-039 6.5.0-26-generic #26.1~22.04.1-Ubuntu SMP Thu Mar 14 04:00:07 UTC 2024 riscv64 Buildd toolchain package versions: launchpad-buildd_236~650~ubuntu22.04.1 python3-lpbuildd_236~650~ubuntu22.04.1 sbuild_0.81.2ubuntu6 git-build-recipe_0.3.6 git_1:2.34.1-1ubuntu1.10 dpkg-dev_1.21.1ubuntu2.3 python3-debian_0.1.43ubuntu1.1. Syncing the system clock with the buildd NTP service... 3 Apr 12:43:34 ntpdate[2238]: adjust time server 10.211.37.1 offset -0.005604 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=noble --arch=riscv64 PACKAGEBUILD-27999132 --image-type chroot /home/buildd/filecache-default/20a3246b7a16d5658607d7f37229fcda30a33651 Creating target for build PACKAGEBUILD-27999132 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=noble --arch=riscv64 PACKAGEBUILD-27999132 Starting target for build PACKAGEBUILD-27999132 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=noble --arch=riscv64 PACKAGEBUILD-27999132 'deb http://ftpmaster.internal/ubuntu noble main restricted universe multiverse' 'deb http://ftpmaster.internal/ubuntu noble-security main restricted universe multiverse' 'deb http://ftpmaster.internal/ubuntu noble-updates main restricted universe multiverse' 'deb http://ftpmaster.internal/ubuntu noble-proposed main restricted universe multiverse' Overriding sources.list in build-PACKAGEBUILD-27999132 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=noble --arch=riscv64 PACKAGEBUILD-27999132 Updating target for build PACKAGEBUILD-27999132 Get:1 http://ftpmaster.internal/ubuntu noble InRelease [255 kB] Get:2 http://ftpmaster.internal/ubuntu noble-security InRelease [90.7 kB] Get:3 http://ftpmaster.internal/ubuntu noble-updates InRelease [89.7 kB] Get:4 http://ftpmaster.internal/ubuntu noble-proposed InRelease [117 kB] Get:5 http://ftpmaster.internal/ubuntu noble/main riscv64 Packages [1352 kB] Get:6 http://ftpmaster.internal/ubuntu noble/main Translation-en [513 kB] Get:7 http://ftpmaster.internal/ubuntu noble/restricted riscv64 Packages [4600 B] Get:8 http://ftpmaster.internal/ubuntu noble/restricted Translation-en [14.3 kB] Get:9 http://ftpmaster.internal/ubuntu noble/universe riscv64 Packages [14.5 MB] Get:10 http://ftpmaster.internal/ubuntu noble/universe Translation-en [6097 kB] Get:11 http://ftpmaster.internal/ubuntu noble/multiverse riscv64 Packages [166 kB] Get:12 http://ftpmaster.internal/ubuntu noble/multiverse Translation-en [109 kB] Get:13 http://ftpmaster.internal/ubuntu noble-updates/main riscv64 Packages [667 kB] Get:14 http://ftpmaster.internal/ubuntu noble-updates/main Translation-en [242 kB] Get:15 http://ftpmaster.internal/ubuntu noble-updates/restricted riscv64 Packages [2284 B] Get:16 http://ftpmaster.internal/ubuntu noble-updates/restricted Translation-en [13.3 kB] Get:17 http://ftpmaster.internal/ubuntu noble-updates/universe riscv64 Packages [4442 kB] Get:18 http://ftpmaster.internal/ubuntu noble-updates/universe Translation-en [1693 kB] Get:19 http://ftpmaster.internal/ubuntu noble-updates/multiverse riscv64 Packages [48.6 kB] Get:20 http://ftpmaster.internal/ubuntu noble-updates/multiverse Translation-en [38.2 kB] Get:21 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 Packages [637 kB] Get:22 http://ftpmaster.internal/ubuntu noble-proposed/main Translation-en [227 kB] Get:23 http://ftpmaster.internal/ubuntu noble-proposed/restricted riscv64 Packages [760 B] Get:24 http://ftpmaster.internal/ubuntu noble-proposed/restricted Translation-en [3568 B] Get:25 http://ftpmaster.internal/ubuntu noble-proposed/universe riscv64 Packages [3080 kB] Get:26 http://ftpmaster.internal/ubuntu noble-proposed/universe Translation-en [1562 kB] Get:27 http://ftpmaster.internal/ubuntu noble-proposed/multiverse riscv64 Packages [32.0 kB] Get:28 http://ftpmaster.internal/ubuntu noble-proposed/multiverse Translation-en [39.1 kB] Fetched 36.0 MB in 53s (684 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 libperl5.36 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* libpng16-16* libreadline8* libssl3* libtirpc3* usrmerge* The following NEW packages will be installed: cpp-13-riscv64-linux-gnu cpp-riscv64-linux-gnu g++-13-riscv64-linux-gnu g++-riscv64-linux-gnu gcc-13-riscv64-linux-gnu gcc-14-base gcc-riscv64-linux-gnu libapt-pkg6.0t64 libdb5.3t64 libext2fs2t64 libgdbm-compat4t64 libgdbm6t64 libgnutls30t64 libhogweed6t64 libnettle8t64 libnpth0t64 libperl5.38t64 libpng16-16t64 libreadline8t64 libssl3t64 libtirpc3t64 libubsan1 libunistring5 perl-modules-5.38 The following packages will be upgraded: apt apt-utils base-files base-passwd bash bash-completion binutils binutils-common binutils-riscv64-linux-gnu bsdextrautils bsdutils bzip2 ca-certificates coreutils cpp cpp-13 dash debconf debconf-i18n debianutils diffutils dpkg dpkg-dev e2fsprogs fakeroot 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 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 libgomp1 libgpg-error-l10n libgpg-error0 libgpm2 libgssapi-krb5-2 libidn2-0 libip4tc2 libjansson4 libk5crypto3 libkeyutils1 libkmod2 libkrb5-3 libkrb5support0 liblocale-gettext-perl liblzma5 libmd0 libmount1 libncursesw6 libnsl-dev libnsl2 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 libtext-charwidth-perl libtext-iconv-perl libtinfo6 libtirpc-common libtirpc-dev libudev1 libuuid1 libxxhash0 libzstd1 linux-libc-dev login logsave lto-disabled-list mawk mount ncurses-base ncurses-bin openssl optipng passwd perl perl-base pinentry-curses procps psmisc readline-common sed sensible-utils systemd systemd-dev systemd-sysv sysvinit-utils tar tzdata ubuntu-keyring util-linux uuid-runtime xz-utils zlib1g 153 upgraded, 24 newly installed, 14 to remove and 0 not upgraded. Need to get 113 MB of archives. After this operation, 70.1 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libnsl-dev riscv64 1.3.0-3build3 [137 kB] Get:2 http://ftpmaster.internal/ubuntu noble/main riscv64 libcrypt-dev riscv64 1:4.4.36-4 [322 kB] Get:3 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libc6-dev riscv64 2.39-0ubuntu8 [3458 kB] Get:4 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libc-dev-bin riscv64 2.39-0ubuntu8 [20.0 kB] Get:5 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libtirpc-common all 1.3.4+ds-1.1build1 [8094 B] Get:6 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libtirpc-dev riscv64 1.3.4+ds-1.1build1 [350 kB] Get:7 http://ftpmaster.internal/ubuntu noble-proposed/universe riscv64 libnss-nisplus riscv64 1.3-5build1 [23.8 kB] Get:8 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libtirpc3t64 riscv64 1.3.4+ds-1.1build1 [92.3 kB] Get:9 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libgssapi-krb5-2 riscv64 1.20.1-6ubuntu2 [153 kB] Get:10 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libkrb5-3 riscv64 1.20.1-6ubuntu2 [385 kB] Get:11 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libk5crypto3 riscv64 1.20.1-6ubuntu2 [108 kB] Get:12 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libkrb5support0 riscv64 1.20.1-6ubuntu2 [36.7 kB] Get:13 http://ftpmaster.internal/ubuntu noble/main riscv64 libacl1 riscv64 2.3.2-1 [18.7 kB] Get:14 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libapparmor1 riscv64 4.0.0-beta3-0ubuntu3 [51.2 kB] Get:15 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libaudit-common all 1:3.1.2-2.1build1 [5736 B] Get:16 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libcap-ng0 riscv64 0.8.4-2build2 [15.5 kB] Get:17 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libaudit1 riscv64 1:3.1.2-2.1build1 [47.9 kB] Get:18 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libblkid1 riscv64 2.39.3-9ubuntu4 [204 kB] Get:19 http://ftpmaster.internal/ubuntu noble/main riscv64 libcap2 riscv64 1:2.66-5ubuntu1 [31.7 kB] Get:20 http://ftpmaster.internal/ubuntu noble/main riscv64 libcrypt1 riscv64 1:4.4.36-4 [115 kB] Get:21 http://ftpmaster.internal/ubuntu noble/main riscv64 libgpg-error-l10n all 1.47-3build1 [8024 B] Get:22 http://ftpmaster.internal/ubuntu noble/main riscv64 libgpg-error0 riscv64 1.47-3build1 [75.7 kB] Get:23 http://ftpmaster.internal/ubuntu noble/main riscv64 libgcrypt20 riscv64 1.10.3-2 [564 kB] Get:24 http://ftpmaster.internal/ubuntu noble/main riscv64 liblzma5 riscv64 5.6.1+really5.4.5-1 [130 kB] Get:25 http://ftpmaster.internal/ubuntu noble/main riscv64 libzstd1 riscv64 1.5.5+dfsg2-2 [349 kB] Get:26 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libkmod2 riscv64 31+20240202-2ubuntu5 [55.0 kB] Get:27 http://ftpmaster.internal/ubuntu noble/main riscv64 libpcre2-8-0 riscv64 10.42-4ubuntu1 [149 kB] Get:28 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libselinux1 riscv64 3.5-2ubuntu2 [86.1 kB] Get:29 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libmount1 riscv64 2.39.3-9ubuntu4 [212 kB] Get:30 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libtext-iconv-perl riscv64 1.7-8build3 [13.5 kB] Get:31 http://ftpmaster.internal/ubuntu noble/main riscv64 libtext-charwidth-perl riscv64 0.04-11build3 [9272 B] Get:32 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 perl-modules-5.38 all 5.38.2-3.2build1 [3110 kB] Get:33 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libdb5.3t64 riscv64 5.3.28+dfsg2-6build1 [779 kB] Get:34 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libgdbm6t64 riscv64 1.23-5.1build1 [35.9 kB] Get:35 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libgdbm-compat4t64 riscv64 1.23-5.1build1 [6884 B] Get:36 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libperl5.38t64 riscv64 5.38.2-3.2build1 [4467 kB] Get:37 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 perl riscv64 5.38.2-3.2build1 [231 kB] Get:38 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 perl-base riscv64 5.38.2-3.2build1 [1833 kB] Get:39 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 liblocale-gettext-perl riscv64 1.07-6ubuntu5 [15.7 kB] Get:40 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 openssl riscv64 3.0.13-0ubuntu3 [992 kB] Get:41 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libsystemd-shared riscv64 255.4-1ubuntu6 [2180 kB] Get:42 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libcryptsetup12 riscv64 2:2.7.0-1ubuntu3 [274 kB] Get:43 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libssl3t64 riscv64 3.0.13-0ubuntu3 [1735 kB] Get:44 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 systemd-dev all 255.4-1ubuntu6 [104 kB] Get:45 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 systemd-sysv riscv64 255.4-1ubuntu6 [11.9 kB] Get:46 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 systemd riscv64 255.4-1ubuntu6 [3552 kB] Get:47 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libsystemd0 riscv64 255.4-1ubuntu6 [458 kB] Get:48 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libpam-modules-bin riscv64 1.5.3-5ubuntu4 [55.1 kB] Get:49 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libpam-modules riscv64 1.5.3-5ubuntu4 [284 kB] Get:50 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libnettle8t64 riscv64 3.9.1-2.2build1 [217 kB] Get:51 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libhogweed6t64 riscv64 3.9.1-2.2build1 [200 kB] Get:52 http://ftpmaster.internal/ubuntu noble/main riscv64 libp11-kit0 riscv64 0.25.3-4ubuntu1 [318 kB] Get:53 http://ftpmaster.internal/ubuntu noble/main riscv64 libunistring5 riscv64 1.1-2 [544 kB] Get:54 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libgnutls30t64 riscv64 3.8.3-1.1ubuntu3 [1012 kB] Get:55 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libapt-pkg6.0t64 riscv64 2.7.14build2 [1050 kB] Get:56 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 bzip2 riscv64 1.0.8-5.1 [35.0 kB] Get:57 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libbz2-1.0 riscv64 1.0.8-5.1 [40.2 kB] Get:58 http://ftpmaster.internal/ubuntu noble/main riscv64 gcc-14-base riscv64 14-20240330-1ubuntu2 [47.5 kB] Get:59 http://ftpmaster.internal/ubuntu noble/main riscv64 libgcc-s1 riscv64 14-20240330-1ubuntu2 [60.7 kB] Get:60 http://ftpmaster.internal/ubuntu noble/main riscv64 libstdc++6 riscv64 14-20240330-1ubuntu2 [806 kB] Get:61 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libudev1 riscv64 255.4-1ubuntu6 [181 kB] Get:62 http://ftpmaster.internal/ubuntu noble/main riscv64 libxxhash0 riscv64 0.8.2-2 [43.7 kB] Get:63 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 zlib1g riscv64 1:1.3.dfsg-3.1ubuntu2 [60.8 kB] Get:64 http://ftpmaster.internal/ubuntu noble/main riscv64 libffi8 riscv64 3.4.6-1 [23.0 kB] Get:65 http://ftpmaster.internal/ubuntu noble/main riscv64 libidn2-0 riscv64 2.3.7-2 [102 kB] Get:66 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libdebconfclient0 riscv64 0.271ubuntu3 [11.2 kB] Get:67 http://ftpmaster.internal/ubuntu noble/main riscv64 base-passwd riscv64 3.6.3 [52.1 kB] Get:68 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libsqlite3-0 riscv64 3.45.1-1ubuntu2 [739 kB] Get:69 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 gpg riscv64 2.4.4-2ubuntu16 [607 kB] Get:70 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libreadline8t64 riscv64 8.2-4build1 [156 kB] Get:71 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 readline-common all 8.2-4build1 [56.5 kB] Get:72 http://ftpmaster.internal/ubuntu noble/main riscv64 libncursesw6 riscv64 6.4+20240113-1ubuntu1 [155 kB] Get:73 http://ftpmaster.internal/ubuntu noble/main riscv64 libtinfo6 riscv64 6.4+20240113-1ubuntu1 [108 kB] Get:74 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 gpg-agent riscv64 2.4.4-2ubuntu16 [282 kB] Get:75 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 gpgconf riscv64 2.4.4-2ubuntu16 [133 kB] Get:76 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 pinentry-curses riscv64 1.2.1-3ubuntu5 [40.6 kB] Get:77 http://ftpmaster.internal/ubuntu noble/main riscv64 init-system-helpers all 1.66ubuntu1 [39.4 kB] Get:78 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libnpth0t64 riscv64 1.6-3.1build1 [8144 B] Get:79 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 gpgv riscv64 2.4.4-2ubuntu16 [276 kB] Get:80 http://ftpmaster.internal/ubuntu noble/main riscv64 ubuntu-keyring all 2023.11.28.1 [11.1 kB] Get:81 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 apt-utils riscv64 2.7.14build2 [226 kB] Get:82 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 apt riscv64 2.7.14build2 [1349 kB] Get:83 http://ftpmaster.internal/ubuntu noble/main riscv64 debconf-i18n all 1.5.86 [205 kB] Get:84 http://ftpmaster.internal/ubuntu noble/main riscv64 debconf all 1.5.86 [124 kB] Get:85 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libpam0g riscv64 1.5.3-5ubuntu4 [69.0 kB] Get:86 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libseccomp2 riscv64 2.5.5-1ubuntu3 [52.9 kB] Get:87 http://ftpmaster.internal/ubuntu noble/main riscv64 libargon2-1 riscv64 0~20190702+dfsg-4 [23.7 kB] Get:88 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libdevmapper1.02.1 riscv64 2:1.02.185-3ubuntu3 [145 kB] Get:89 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libuuid1 riscv64 2.39.3-9ubuntu4 [37.6 kB] Get:90 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libfdisk1 riscv64 2.39.3-9ubuntu4 [238 kB] Get:91 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 mount riscv64 2.39.3-9ubuntu4 [152 kB] Get:92 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libcom-err2 riscv64 1.47.0-2.4~exp1ubuntu3 [22.5 kB] Get:93 http://ftpmaster.internal/ubuntu noble/main riscv64 libkeyutils1 riscv64 1.6.3-3 [9694 B] Get:94 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libnsl2 riscv64 1.3.0-3build3 [43.3 kB] Get:95 http://ftpmaster.internal/ubuntu noble/main riscv64 linux-libc-dev riscv64 6.8.0-20.20 [1567 kB] Get:96 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libc6 riscv64 2.39-0ubuntu8 [2776 kB] Get:97 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libc-bin riscv64 2.39-0ubuntu8 [609 kB] Get:98 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 base-files riscv64 13ubuntu9 [73.6 kB] Get:99 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 debianutils riscv64 5.17build1 [89.8 kB] Get:100 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 bash riscv64 5.2.21-2ubuntu4 [745 kB] Get:101 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 bsdutils riscv64 1:2.39.3-9ubuntu4 [115 kB] Get:102 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 coreutils riscv64 9.4-3ubuntu5 [1458 kB] Get:103 http://ftpmaster.internal/ubuntu noble/main riscv64 tar riscv64 1.35+dfsg-3 [269 kB] Get:104 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 dpkg riscv64 1.22.6ubuntu6 [1285 kB] Get:105 http://ftpmaster.internal/ubuntu noble/main riscv64 dash riscv64 0.5.12-6ubuntu5 [93.2 kB] Get:106 http://ftpmaster.internal/ubuntu noble/main riscv64 diffutils riscv64 1:3.10-1 [180 kB] Get:107 http://ftpmaster.internal/ubuntu noble/main riscv64 grep riscv64 3.11-4 [182 kB] Get:108 http://ftpmaster.internal/ubuntu noble/main riscv64 gzip riscv64 1.12-1ubuntu2 [102 kB] Get:109 http://ftpmaster.internal/ubuntu noble/main riscv64 hostname riscv64 3.23+nmu2ubuntu1 [11.3 kB] Get:110 http://ftpmaster.internal/ubuntu noble/main riscv64 login riscv64 1:4.13+dfsg1-4ubuntu1 [203 kB] Get:111 http://ftpmaster.internal/ubuntu noble/main riscv64 ncurses-bin riscv64 6.4+20240113-1ubuntu1 [186 kB] Get:112 http://ftpmaster.internal/ubuntu noble/main riscv64 sed riscv64 4.9-2 [211 kB] Get:113 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 util-linux riscv64 2.39.3-9ubuntu4 [1330 kB] Get:114 http://ftpmaster.internal/ubuntu noble/main riscv64 ncurses-base all 6.4+20240113-1ubuntu1 [25.4 kB] Get:115 http://ftpmaster.internal/ubuntu noble/main riscv64 sysvinit-utils riscv64 3.08-6ubuntu2 [35.0 kB] Get:116 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 logsave riscv64 1.47.0-2.4~exp1ubuntu3 [22.2 kB] Get:117 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libext2fs2t64 riscv64 1.47.0-2.4~exp1ubuntu3 [243 kB] Get:118 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 e2fsprogs riscv64 1.47.0-2.4~exp1ubuntu3 [604 kB] Get:119 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 optipng riscv64 0.7.8+ds-1build2 [115 kB] Get:120 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libpng16-16t64 riscv64 1.6.43-5build1 [193 kB] Get:121 http://ftpmaster.internal/ubuntu noble/main riscv64 init riscv64 1.66ubuntu1 [6190 B] Get:122 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libsmartcols1 riscv64 2.39.3-9ubuntu4 [146 kB] Get:123 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 uuid-runtime riscv64 2.39.3-9ubuntu4 [49.2 kB] Get:124 http://ftpmaster.internal/ubuntu noble/main riscv64 libattr1 riscv64 1:2.5.2-1 [11.5 kB] Get:125 http://ftpmaster.internal/ubuntu noble/main riscv64 libmd0 riscv64 1.1.0-2 [30.6 kB] Get:126 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libpam-runtime all 1.5.3-5ubuntu4 [40.8 kB] Get:127 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libsemanage-common all 3.5-1build5 [10.1 kB] Get:128 http://ftpmaster.internal/ubuntu noble/main riscv64 libsepol2 riscv64 3.5-2 [312 kB] Get:129 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libsemanage2 riscv64 3.5-1build5 [101 kB] Get:130 http://ftpmaster.internal/ubuntu noble/main riscv64 passwd riscv64 1:4.13+dfsg1-4ubuntu1 [864 kB] Get:131 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libproc2-0 riscv64 2:4.0.4-4ubuntu3 [60.9 kB] Get:132 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libss2 riscv64 1.47.0-2.4~exp1ubuntu3 [17.1 kB] Get:133 http://ftpmaster.internal/ubuntu noble/main riscv64 mawk riscv64 1.3.4.20240123-1 [129 kB] Get:134 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 procps riscv64 2:4.0.4-4ubuntu3 [715 kB] Get:135 http://ftpmaster.internal/ubuntu noble/main riscv64 sensible-utils all 0.0.22 [22.5 kB] Get:136 http://ftpmaster.internal/ubuntu noble/main riscv64 ca-certificates all 20240203 [159 kB] Get:137 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 krb5-locales all 1.20.1-6ubuntu2 [13.8 kB] Get:138 http://ftpmaster.internal/ubuntu noble/main riscv64 tzdata all 2024a-1ubuntu1 [273 kB] Get:139 http://ftpmaster.internal/ubuntu noble/main riscv64 bash-completion all 1:2.11-8 [180 kB] Get:140 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 bsdextrautils riscv64 2.39.3-9ubuntu4 [92.1 kB] Get:141 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libgpm2 riscv64 1.20.7-11 [15.0 kB] Get:142 http://ftpmaster.internal/ubuntu noble/main riscv64 libip4tc2 riscv64 1.8.10-3ubuntu1 [23.9 kB] Get:143 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libjansson4 riscv64 2.14-2build2 [34.7 kB] Get:144 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 psmisc riscv64 23.7-1build1 [177 kB] Get:145 http://ftpmaster.internal/ubuntu noble/main riscv64 xz-utils riscv64 5.6.1+really5.4.5-1 [269 kB] Get:146 http://ftpmaster.internal/ubuntu noble/main riscv64 libctf0 riscv64 2.42-4ubuntu2 [104 kB] Get:147 http://ftpmaster.internal/ubuntu noble/main riscv64 libctf-nobfd0 riscv64 2.42-4ubuntu2 [106 kB] Get:148 http://ftpmaster.internal/ubuntu noble/main riscv64 binutils-riscv64-linux-gnu riscv64 2.42-4ubuntu2 [899 kB] Get:149 http://ftpmaster.internal/ubuntu noble/main riscv64 libbinutils riscv64 2.42-4ubuntu2 [566 kB] Get:150 http://ftpmaster.internal/ubuntu noble/main riscv64 binutils riscv64 2.42-4ubuntu2 [2984 B] Get:151 http://ftpmaster.internal/ubuntu noble/main riscv64 binutils-common riscv64 2.42-4ubuntu2 [209 kB] Get:152 http://ftpmaster.internal/ubuntu noble/main riscv64 libsframe1 riscv64 2.42-4ubuntu2 [15.7 kB] Get:153 http://ftpmaster.internal/ubuntu noble/main riscv64 libgomp1 riscv64 14-20240330-1ubuntu2 [145 kB] Get:154 http://ftpmaster.internal/ubuntu noble/main riscv64 libatomic1 riscv64 14-20240330-1ubuntu2 [9490 B] Get:155 http://ftpmaster.internal/ubuntu noble/main riscv64 libasan8 riscv64 14-20240330-1ubuntu2 [2621 kB] Get:156 http://ftpmaster.internal/ubuntu noble/main riscv64 libubsan1 riscv64 14-20240330-1ubuntu2 [1076 kB] Get:157 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 g++-13 riscv64 13.2.0-23ubuntu3 [14.5 kB] Get:158 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 gcc-13 riscv64 13.2.0-23ubuntu3 [450 kB] Get:159 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libstdc++-13-dev riscv64 13.2.0-23ubuntu3 [5666 kB] Get:160 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libgcc-13-dev riscv64 13.2.0-23ubuntu3 [3858 kB] Get:161 http://ftpmaster.internal/ubuntu noble/main riscv64 libcc1-0 riscv64 14-20240330-1ubuntu2 [45.5 kB] Get:162 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 cpp-13 riscv64 13.2.0-23ubuntu3 [1030 B] Get:163 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 gcc-13-base riscv64 13.2.0-23ubuntu3 [48.7 kB] Get:164 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 gcc-13-riscv64-linux-gnu riscv64 13.2.0-23ubuntu3 [19.7 MB] Get:165 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 g++-13-riscv64-linux-gnu riscv64 13.2.0-23ubuntu3 [11.6 MB] Get:166 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 cpp-13-riscv64-linux-gnu riscv64 13.2.0-23ubuntu3 [10.3 MB] Get:167 http://ftpmaster.internal/ubuntu noble/main riscv64 g++ riscv64 4:13.2.0-7ubuntu1 [1082 B] Get:168 http://ftpmaster.internal/ubuntu noble/main riscv64 gcc riscv64 4:13.2.0-7ubuntu1 [5016 B] Get:169 http://ftpmaster.internal/ubuntu noble/main riscv64 cpp riscv64 4:13.2.0-7ubuntu1 [22.4 kB] Get:170 http://ftpmaster.internal/ubuntu noble/main riscv64 cpp-riscv64-linux-gnu riscv64 4:13.2.0-7ubuntu1 [5316 B] Get:171 http://ftpmaster.internal/ubuntu noble/main riscv64 gcc-riscv64-linux-gnu riscv64 4:13.2.0-7ubuntu1 [1202 B] Get:172 http://ftpmaster.internal/ubuntu noble/main riscv64 g++-riscv64-linux-gnu riscv64 4:13.2.0-7ubuntu1 [960 B] Get:173 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 dpkg-dev all 1.22.6ubuntu6 [1074 kB] Get:174 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libdpkg-perl all 1.22.6ubuntu6 [268 kB] Get:175 http://ftpmaster.internal/ubuntu noble/main riscv64 lto-disabled-list all 47 [12.4 kB] Get:176 http://ftpmaster.internal/ubuntu noble/main riscv64 libfakeroot riscv64 1.33-1 [34.6 kB] Get:177 http://ftpmaster.internal/ubuntu noble/main riscv64 fakeroot riscv64 1.33-1 [78.4 kB] Preconfiguring packages ... Fetched 113 MB in 19s (6005 kB/s) (Reading database ... 13552 files and directories currently installed.) Preparing to unpack .../0-libnsl-dev_1.3.0-3build3_riscv64.deb ... Unpacking libnsl-dev:riscv64 (1.3.0-3build3) over (1.3.0-2build2) ... Preparing to unpack .../1-libcrypt-dev_1%3a4.4.36-4_riscv64.deb ... Unpacking libcrypt-dev:riscv64 (1:4.4.36-4) over (1:4.4.36-2) ... Preparing to unpack .../2-libc6-dev_2.39-0ubuntu8_riscv64.deb ... Unpacking libc6-dev:riscv64 (2.39-0ubuntu8) over (2.38-1ubuntu6) ... Preparing to unpack .../3-libc-dev-bin_2.39-0ubuntu8_riscv64.deb ... Unpacking libc-dev-bin (2.39-0ubuntu8) over (2.38-1ubuntu6) ... Preparing to unpack .../4-libtirpc-common_1.3.4+ds-1.1build1_all.deb ... Unpacking libtirpc-common (1.3.4+ds-1.1build1) over (1.3.3+ds-1) ... Preparing to unpack .../5-libtirpc-dev_1.3.4+ds-1.1build1_riscv64.deb ... Unpacking libtirpc-dev:riscv64 (1.3.4+ds-1.1build1) over (1.3.3+ds-1) ... 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Unpacking libdb5.3t64:riscv64 (5.3.28+dfsg2-6build1) ... dpkg: libgdbm6:riscv64: dependency problems, but removing anyway as you requested: libperl5.36:riscv64 depends on libgdbm6 (>= 1.21). libgdbm-compat4:riscv64 depends on libgdbm6 (>= 1.16). (Reading database ... 14975 files and directories currently installed.) Removing libgdbm6:riscv64 (1.23-3) ... Selecting previously unselected package libgdbm6t64:riscv64. (Reading database ... 14970 files and directories currently installed.) Preparing to unpack .../libgdbm6t64_1.23-5.1build1_riscv64.deb ... Unpacking libgdbm6t64:riscv64 (1.23-5.1build1) ... dpkg: libgdbm-compat4:riscv64: dependency problems, but removing anyway as you requested: libperl5.36:riscv64 depends on libgdbm-compat4 (>= 1.18-3). (Reading database ... 14976 files and directories currently installed.) Removing libgdbm-compat4:riscv64 (1.23-3) ... Selecting previously unselected package libgdbm-compat4t64:riscv64. 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Unpacking systemd (255.4-1ubuntu6) over (253.5-1ubuntu6) ... dpkg: warning: unable to delete old directory '/lib/systemd/system-preset': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system-generators': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/user@0.service.d': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/user@.service.d': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/user-.slice.d': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/timers.target.wants': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/systemd-localed.service.d': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/sysinit.target.wants': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/sockets.target.wants': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/rescue.target.wants': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/rc-local.service.d': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/multi-user.target.wants': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/initrd.target.wants': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/initrd-root-fs.target.wants': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/initrd-root-device.target.wants': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/graphical.target.wants': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/system/getty.target.wants': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/network': Directory not empty dpkg: warning: unable to delete old directory '/lib/systemd/journald.conf.d': Directory not empty dpkg: warning: unable to delete old directory '/lib/modprobe.d': Directory not empty Preparing to unpack .../libsystemd0_255.4-1ubuntu6_riscv64.deb ... 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(both '/usr/bin/bunzip2' and '/usr/bin/bzcat') dpkg: warning: old file '/bin/bzip2' is the same as several new files! (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_riscv64.deb ... Unpacking libbz2-1.0:riscv64 (1.0.8-5.1) over (1.0.8-5build1) ... Setting up libbz2-1.0:riscv64 (1.0.8-5.1) ... Selecting previously unselected package gcc-14-base:riscv64. (Reading database ... 15664 files and directories currently installed.) 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Universal Time is now: Wed Apr 3 12:55:25 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up fakeroot (1.33-1) ... Setting up gcc-13-base:riscv64 (13.2.0-23ubuntu3) ... 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 (5.38.2-3.2build1) ... Setting up libproc2-0:riscv64 (2:4.0.4-4ubuntu3) ... Setting up libpng16-16t64:riscv64 (1.6.43-5build1) ... Setting up libatomic1:riscv64 (14-20240330-1ubuntu2) ... Setting up libss2:riscv64 (1.47.0-2.4~exp1ubuntu3) ... Setting up libncursesw6:riscv64 (6.4+20240113-1ubuntu1) ... Setting up libk5crypto3:riscv64 (1.20.1-6ubuntu2) ... Setting up logsave (1.47.0-2.4~exp1ubuntu3) ... Setting up libdb5.3t64:riscv64 (5.3.28+dfsg2-6build1) ... Setting up libubsan1:riscv64 (14-20240330-1ubuntu2) ... Setting up sensible-utils (0.0.22) ... Setting up uuid-runtime (2.39.3-9ubuntu4) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of restart. Setting up libcrypt-dev:riscv64 (1:4.4.36-4) ... Setting up libasan8:riscv64 (14-20240330-1ubuntu2) ... Setting up procps (2:4.0.4-4ubuntu3) ... Installing new version of config file /etc/sysctl.conf ... Setting up mawk (1.3.4.20240123-1) ... Setting up libkrb5-3:riscv64 (1.20.1-6ubuntu2) ... Setting up libperl5.38t64:riscv64 (5.38.2-3.2build1) ... Setting up libbinutils:riscv64 (2.42-4ubuntu2) ... Setting up libc-dev-bin (2.39-0ubuntu8) ... Setting up openssl (3.0.13-0ubuntu3) ... Setting up libgpg-error-l10n (1.47-3build1) ... Setting up readline-common (8.2-4build1) ... Setting up libcc1-0:riscv64 (14-20240330-1ubuntu2) ... Setting up liblocale-gettext-perl (1.07-6ubuntu5) ... Setting up libctf0:riscv64 (2.42-4ubuntu2) ... Setting up pinentry-curses (1.2.1-3ubuntu5) ... Setting up apt-utils (2.7.14build2) ... Setting up cpp-13-riscv64-linux-gnu (13.2.0-23ubuntu3) ... Setting up binutils-riscv64-linux-gnu (2.42-4ubuntu2) ... Setting up debconf-i18n (1.5.86) ... Setting up e2fsprogs (1.47.0-2.4~exp1ubuntu3) ... Setting up binutils (2.42-4ubuntu2) ... 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 (5.38.2-3.2build1) ... Setting up optipng (0.7.8+ds-1build2) ... Setting up libgssapi-krb5-2:riscv64 (1.20.1-6ubuntu2) ... Setting up libdpkg-perl (1.22.6ubuntu6) ... Setting up libreadline8t64:riscv64 (8.2-4build1) ... Setting up libgcc-13-dev:riscv64 (13.2.0-23ubuntu3) ... Setting up gpgconf (2.4.4-2ubuntu16) ... Setting up libc6-dev:riscv64 (2.39-0ubuntu8) ... Setting up cpp-riscv64-linux-gnu (4:13.2.0-7ubuntu1) ... Setting up gpg (2.4.4-2ubuntu16) ... Setting up libstdc++-13-dev:riscv64 (13.2.0-23ubuntu3) ... Setting up gpg-agent (2.4.4-2ubuntu16) ... Setting up cpp-13 (13.2.0-23ubuntu3) ... Setting up libtirpc3t64:riscv64 (1.3.4+ds-1.1build1) ... Setting up gcc-13-riscv64-linux-gnu (13.2.0-23ubuntu3) ... Setting up dpkg-dev (1.22.6ubuntu6) ... Setting up gcc-riscv64-linux-gnu (4:13.2.0-7ubuntu1) ... Setting up libtirpc-dev:riscv64 (1.3.4+ds-1.1build1) ... Setting up gcc-13 (13.2.0-23ubuntu3) ... Setting up cpp (4:13.2.0-7ubuntu1) ... Setting up libnsl2:riscv64 (1.3.0-3build3) ... Setting up g++-13-riscv64-linux-gnu (13.2.0-23ubuntu3) ... Setting up g++-13 (13.2.0-23ubuntu3) ... Setting up libnss-nisplus:riscv64 (1.3-5build1) ... Setting up gcc (4:13.2.0-7ubuntu1) ... Setting up g++-riscv64-linux-gnu (4:13.2.0-7ubuntu1) ... Setting up g++ (4:13.2.0-7ubuntu1) ... Setting up libnsl-dev:riscv64 (1.3.0-3build3) ... Processing triggers for libc-bin (2.39-0ubuntu8) ... Processing triggers for debianutils (5.17build1) ... (Reading database ... 15732 files and directories currently installed.) Purging configuration files for libssl3:riscv64 (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-27999132 riscv64 noble-proposed -c chroot:build-PACKAGEBUILD-27999132 --arch=riscv64 --dist=noble-proposed --nolog vienna-rna_2.5.1+dfsg-1build3.dsc Initiating build PACKAGEBUILD-27999132 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 6.5.0-26-generic #26.1~22.04.1-Ubuntu SMP Thu Mar 14 04:00:07 UTC 2024 riscv64 sbuild (Debian sbuild) 0.81.2ubuntu6 (16 February 2022) on bos03-riscv64-039.buildd +==============================================================================+ | vienna-rna 2.5.1+dfsg-1build3 (riscv64) Wed, 03 Apr 2024 12:59:38 +0000 | +==============================================================================+ Package: vienna-rna Version: 2.5.1+dfsg-1build3 Source Version: 2.5.1+dfsg-1build3 Distribution: noble-proposed Machine Architecture: riscv64 Host Architecture: riscv64 Build Architecture: riscv64 Build Type: any I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-27999132/chroot-autobuild' with '<>' I: NOTICE: Log filtering will replace 'build/vienna-rna-W5v3pH/resolver-N9fz7u' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- vienna-rna_2.5.1+dfsg-1build3.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/vienna-rna-W5v3pH/vienna-rna-2.5.1+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/vienna-rna-W5v3pH' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), dh-python, python3-dev, pkg-config, libtool, gettext, swig (>= 4.0.2), perl-doc, perl, graphviz, libdlib-dev, libgsl-dev, liblapack-dev, libmpfr-dev, libsvm-dev, xxd, texlive-latex-extra, help2man, gengetopt, cthreadpool-dev, ghostscript, doxygen, texinfo, build-essential, fakeroot Filtered Build-Depends: debhelper-compat (= 13), dh-python, python3-dev, pkg-config, libtool, gettext, swig (>= 4.0.2), perl-doc, perl, graphviz, libdlib-dev, libgsl-dev, liblapack-dev, libmpfr-dev, libsvm-dev, xxd, texlive-latex-extra, help2man, gengetopt, cthreadpool-dev, ghostscript, doxygen, texinfo, 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 [957 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [511 B] Get:5 copy:/<>/apt_archive ./ Packages [591 B] Fetched 2059 B in 1s (3034 B/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 libnsl-dev libnsl2 libnss-nis libnss-nisplus libperl5.36 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 cthreadpool-dev debhelper debugedit dh-autoreconf dh-python dh-strip-nondeterminism doxygen dwz file fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-lmodern fonts-urw-base35 gengetopt gettext gettext-base ghostscript graphviz groff-base help2man intltool-debian libann0 libapache-pom-java libarchive-zip-perl libavahi-client3 libavahi-common-data libavahi-common3 libblas-dev libblas3 libbrotli1 libbsd0 libcairo2 libcdt5 libcgraph6 libclang-cpp18 libclang1-18 libcommons-logging-java libcommons-parent-java libcups2t64 libdatrie1 libdbus-1-3 libdebhelper-perl libdeflate0 libdlib-data libdlib-dev libdlib19.1t64 libdrm-amdgpu1 libdrm-common libdrm-nouveau2 libdrm-radeon1 libdrm2 libdw1t64 libedit2 libelf1t64 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libfmt9 libfontbox-java libfontconfig1 libfontenc1 libfreetype6 libfribidi0 libgd3 libgfortran5 libgl1-mesa-dri libglapi-mesa libglib2.0-0t64 libglvnd0 libglx-mesa0 libglx0 libgmp-dev libgmpxx4ldbl libgraphite2-3 libgs-common libgs10 libgs10-common libgsl-dev libgsl27 libgslcblas0 libgts-0.7-5t64 libgvc6 libgvpr2 libharfbuzz0b libhwloc15 libice6 libicu74 libidn12 libijs-0.35 libjbig0 libjbig2dec0 libjpeg-turbo8 libjpeg8 libjs-jquery libjs-sphinxdoc libjs-underscore libkpathsea6 liblab-gamut1 liblapack-dev liblapack3 liblerc4 libllvm17t64 libllvm18 libltdl7 libmagic-mgc libmagic1t64 libmpfr-dev libopencv-core-dev libopencv-core406t64 libopenjp2-7 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpathplan4 libpdfbox-java libpipeline1 libpixman-1-0 libpkgconf3 libpng-dev libpotrace0 libptexenc1 libpthread-stubs0-dev libpython3-dev libpython3-stdlib libpython3.12-dev libpython3.12-minimal libpython3.12-stdlib libpython3.12t64 libsensors-config libsensors5 libsharpyuv0 libsm6 libsqlite3-dev libsub-override-perl libsvm-dev libsvm3 libsynctex2 libtbb-dev libtbb12 libtbbbind-2-5 libtbbmalloc2 libteckit0 libtexlua53-5 libtext-unidecode-perl libthai-data libthai0 libtiff6 libtool libuchardet0 libvulkan1 libwebp7 libx11-6 libx11-data libx11-dev libx11-xcb1 libxapian30 libxau-dev libxau6 libxaw7 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-randr0 libxcb-render0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxcb1-dev libxdmcp-dev libxdmcp6 libxext6 libxfixes3 libxi6 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml2 libxmu6 libxpm4 libxrender1 libxshmfence1 libxt6t64 libxxf86vm1 libzzip-0-13t64 m4 man-db media-types netbase perl-doc pkg-config pkgconf pkgconf-bin po-debconf poppler-data preview-latex-style pybind11-dev python3 python3-dev python3-minimal python3-pkg-resources python3-setuptools python3.12 python3.12-dev python3.12-minimal swig t1utils tex-common texinfo texinfo-lib texlive-base texlive-binaries texlive-latex-base texlive-latex-extra texlive-latex-recommended texlive-pictures ucf x11-common x11proto-dev xdg-utils xfonts-encodings xfonts-utils xorg-sgml-doctools xtrans-dev xxd zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc dh-make flit python3-build python3-installer python3-wheel doxygen-latex doxygen-doc doxygen-gui fonts-freefont-otf | fonts-freefont-ttf fonts-texgyre gettext-doc libasprintf-dev libgettextpo-dev gsfonts graphviz-doc groff liblapack-doc libavalon-framework-java libexcalibur-logkit-java liblog4j1.2-java cups-common libgd-tools low-memory-monitor gmp-doc libgmp10-doc gsl-ref-psdoc | gsl-doc-pdf | gsl-doc-info | gsl-ref-html libmpfr-doc lm-sensors sqlite3-doc libtbb-doc libtool-doc gfortran | fortran95-compiler gcj-jdk libx11-doc xapian-tools libxcb-doc m4-doc apparmor less www-browser libmail-box-perl poppler-utils fonts-japanese-mincho | fonts-ipafont-mincho fonts-japanese-gothic | fonts-ipafont-gothic fonts-arphic-ukai fonts-arphic-uming fonts-nanum pybind11-doc python3-doc python3-tk python3-venv python-setuptools-doc python3.12-venv python3.12-doc binfmt-support swig-doc swig-examples texlive-plain-generic texlive-fonts-recommended perl-tk xpdf | pdf-viewer xzdec hintview texlive-latex-base-doc wp2latex python3-pygments icc-profiles libfile-which-perl texlive-latex-extra-doc texlive-science texlive-latex-recommended-doc texlive-luatex texlive-pstricks dot2tex prerex texlive-pictures-doc vprerex Recommended packages: curl | wget | lynx fonts-liberation2 dbus libarchive-cpio-perl libgl1-amber-dri libglib2.0-data shared-mime-info xdg-user-dirs fonts-droid-fallback libgts-bin libhwloc-plugins javascript-common libpng-tools libltdl-dev mesa-vulkan-drivers | vulkan-icd libwww-perl libxml-sax-expat-perl libmail-sendmail-perl libeigen3-dev lmodern dvisvgm default-jre libspreadsheet-parseexcel-perl texlive-fonts-recommended texlive-plain-generic ruby tk libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils x11-xserver-utils The following NEW packages will be installed: autoconf automake autopoint autotools-dev cthreadpool-dev debhelper debugedit dh-autoreconf dh-python dh-strip-nondeterminism doxygen dwz file fontconfig fontconfig-config fonts-dejavu-core fonts-dejavu-mono fonts-lmodern fonts-urw-base35 gengetopt gettext gettext-base ghostscript graphviz groff-base help2man intltool-debian libann0 libapache-pom-java libarchive-zip-perl libavahi-client3 libavahi-common-data libavahi-common3 libblas-dev libblas3 libbrotli1 libbsd0 libcairo2 libcdt5 libcgraph6 libclang-cpp18 libclang1-18 libcommons-logging-java libcommons-parent-java libcups2t64 libdatrie1 libdbus-1-3 libdebhelper-perl libdeflate0 libdlib-data libdlib-dev libdlib19.1t64 libdrm-amdgpu1 libdrm-common libdrm-nouveau2 libdrm-radeon1 libdrm2 libdw1t64 libedit2 libelf1t64 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libfmt9 libfontbox-java libfontconfig1 libfontenc1 libfreetype6 libfribidi0 libgd3 libgfortran5 libgl1-mesa-dri libglapi-mesa libglib2.0-0t64 libglvnd0 libglx-mesa0 libglx0 libgmp-dev libgmpxx4ldbl libgraphite2-3 libgs-common libgs10 libgs10-common libgsl-dev libgsl27 libgslcblas0 libgts-0.7-5t64 libgvc6 libgvpr2 libharfbuzz0b libhwloc15 libice6 libicu74 libidn12 libijs-0.35 libjbig0 libjbig2dec0 libjpeg-turbo8 libjpeg8 libjs-jquery libjs-sphinxdoc libjs-underscore libkpathsea6 liblab-gamut1 liblapack-dev liblapack3 liblerc4 libllvm17t64 libllvm18 libltdl7 libmagic-mgc libmagic1t64 libmpfr-dev libopencv-core-dev libopencv-core406t64 libopenjp2-7 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpaper-utils libpaper1 libpathplan4 libpdfbox-java libpipeline1 libpixman-1-0 libpkgconf3 libpng-dev libpotrace0 libptexenc1 libpthread-stubs0-dev libpython3-dev libpython3-stdlib libpython3.12-dev libpython3.12-minimal libpython3.12-stdlib libpython3.12t64 libsensors-config libsensors5 libsharpyuv0 libsm6 libsqlite3-dev libsub-override-perl libsvm-dev libsvm3 libsynctex2 libtbb-dev libtbb12 libtbbbind-2-5 libtbbmalloc2 libteckit0 libtexlua53-5 libtext-unidecode-perl libthai-data libthai0 libtiff6 libtool libuchardet0 libvulkan1 libwebp7 libx11-6 libx11-data libx11-dev libx11-xcb1 libxapian30 libxau-dev libxau6 libxaw7 libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-randr0 libxcb-render0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxcb1-dev libxdmcp-dev libxdmcp6 libxext6 libxfixes3 libxi6 libxml-libxml-perl libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl libxml2 libxmu6 libxpm4 libxrender1 libxshmfence1 libxt6t64 libxxf86vm1 libzzip-0-13t64 m4 man-db media-types netbase perl-doc pkg-config pkgconf pkgconf-bin po-debconf poppler-data preview-latex-style pybind11-dev python3 python3-dev python3-minimal python3-pkg-resources python3-setuptools python3.12 python3.12-dev python3.12-minimal sbuild-build-depends-main-dummy swig t1utils tex-common texinfo texinfo-lib texlive-base texlive-binaries texlive-latex-base texlive-latex-extra texlive-latex-recommended texlive-pictures ucf x11-common x11proto-dev xdg-utils xfonts-encodings xfonts-utils xorg-sgml-doctools xtrans-dev xxd zlib1g-dev 0 upgraded, 237 newly installed, 0 to remove and 0 not upgraded. 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riscv64 po-debconf all 1.0.21+nmu1 [233 kB] Get:59 http://ftpmaster.internal/ubuntu noble/main riscv64 debhelper all 13.14.1ubuntu5 [869 kB] Get:60 http://ftpmaster.internal/ubuntu noble/main riscv64 python3-setuptools all 68.1.2-2ubuntu1 [396 kB] Get:61 http://ftpmaster.internal/ubuntu noble-proposed/universe riscv64 dh-python all 6.20240401 [110 kB] Get:62 http://ftpmaster.internal/ubuntu noble/main riscv64 libllvm18 riscv64 1:18.1.2-1ubuntu2 [27.2 MB] Get:63 http://ftpmaster.internal/ubuntu noble/main riscv64 libclang-cpp18 riscv64 1:18.1.2-1ubuntu2 [13.6 MB] Get:64 http://ftpmaster.internal/ubuntu noble/main riscv64 libclang1-18 riscv64 1:18.1.2-1ubuntu2 [7803 kB] Get:65 http://ftpmaster.internal/ubuntu noble/universe riscv64 libfmt9 riscv64 9.1.0+ds1-2 [61.4 kB] Get:66 http://ftpmaster.internal/ubuntu noble/universe riscv64 libxapian30 riscv64 1.4.22-1 [707 kB] Get:67 http://ftpmaster.internal/ubuntu noble-proposed/universe riscv64 doxygen riscv64 1.9.8+ds-2build5 [5243 kB] Get:68 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libbrotli1 riscv64 1.1.0-2build2 [389 kB] Get:69 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libfreetype6 riscv64 2.13.2+dfsg-1build3 [430 kB] Get:70 http://ftpmaster.internal/ubuntu noble/main riscv64 fonts-dejavu-mono all 2.37-8 [502 kB] Get:71 http://ftpmaster.internal/ubuntu noble/main riscv64 fonts-dejavu-core all 2.37-8 [835 kB] Get:72 http://ftpmaster.internal/ubuntu noble/main riscv64 libfontenc1 riscv64 1:1.1.8-1build1 [14.2 kB] Get:73 http://ftpmaster.internal/ubuntu noble/main riscv64 x11-common all 1:7.7+23ubuntu2 [23.4 kB] Get:74 http://ftpmaster.internal/ubuntu noble/main riscv64 xfonts-encodings all 1:1.0.5-0ubuntu2 [578 kB] Get:75 http://ftpmaster.internal/ubuntu noble/main riscv64 xfonts-utils riscv64 1:7.7+6build2 [92.1 kB] Get:76 http://ftpmaster.internal/ubuntu noble/main riscv64 fonts-urw-base35 all 20200910-8 [11.0 MB] Get:77 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 fontconfig-config riscv64 2.15.0-1.1ubuntu2 [37.4 kB] Get:78 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libfontconfig1 riscv64 2.15.0-1.1ubuntu2 [145 kB] Get:79 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 fontconfig riscv64 2.15.0-1.1ubuntu2 [190 kB] Get:80 http://ftpmaster.internal/ubuntu noble/universe riscv64 fonts-lmodern all 2.005-1 [4799 kB] Get:81 http://ftpmaster.internal/ubuntu noble/universe riscv64 gengetopt riscv64 2.23+dfsg1-1 [152 kB] Get:82 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libgs-common all 10.02.1~dfsg1-0ubuntu6 [174 kB] Get:83 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libgs10-common all 10.02.1~dfsg1-0ubuntu6 [488 kB] Get:84 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libavahi-common-data riscv64 0.8-13ubuntu5 [29.6 kB] Get:85 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libavahi-common3 riscv64 0.8-13ubuntu5 [24.4 kB] Get:86 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libavahi-client3 riscv64 0.8-13ubuntu5 [27.9 kB] Get:87 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libcups2t64 riscv64 2.4.7-1.2ubuntu3 [286 kB] Get:88 http://ftpmaster.internal/ubuntu noble/main riscv64 libidn12 riscv64 1.42-1 [59.0 kB] Get:89 http://ftpmaster.internal/ubuntu noble/main riscv64 libijs-0.35 riscv64 0.35-15.1 [14.3 kB] Get:90 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libjbig2dec0 riscv64 0.20-1build3 [67.2 kB] Get:91 http://ftpmaster.internal/ubuntu noble/main riscv64 libjpeg-turbo8 riscv64 2.1.5-2ubuntu1 [119 kB] Get:92 http://ftpmaster.internal/ubuntu noble/main riscv64 libjpeg8 riscv64 8c-2ubuntu11 [2150 B] Get:93 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libopenjp2-7 riscv64 2.5.0-2build3 [200 kB] Get:94 http://ftpmaster.internal/ubuntu noble/main riscv64 libpaper1 riscv64 1.1.29 [12.6 kB] Get:95 http://ftpmaster.internal/ubuntu noble/main riscv64 libdeflate0 riscv64 1.19-1 [40.0 kB] Get:96 http://ftpmaster.internal/ubuntu noble/main riscv64 libjbig0 riscv64 2.1-6.1ubuntu1 [28.0 kB] Get:97 http://ftpmaster.internal/ubuntu noble/main riscv64 liblerc4 riscv64 4.0.0+ds-4ubuntu1 [187 kB] Get:98 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libsharpyuv0 riscv64 1.3.2-0.4build3 [14.9 kB] Get:99 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libwebp7 riscv64 1.3.2-0.4build3 [204 kB] Get:100 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libtiff6 riscv64 4.5.1+git230720-4ubuntu2 [205 kB] Get:101 http://ftpmaster.internal/ubuntu noble/main riscv64 libice6 riscv64 2:1.0.10-1build2 [37.3 kB] Get:102 http://ftpmaster.internal/ubuntu noble/main riscv64 libsm6 riscv64 2:1.2.3-1build2 [15.3 kB] Get:103 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libxt6t64 riscv64 1:1.2.1-1.2build1 [176 kB] Get:104 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libgs10 riscv64 10.02.1~dfsg1-0ubuntu6 [5254 kB] Get:105 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 ghostscript riscv64 10.02.1~dfsg1-0ubuntu6 [43.4 kB] Get:106 http://ftpmaster.internal/ubuntu noble/universe riscv64 libann0 riscv64 1.1.2+doc-9 [26.0 kB] Get:107 http://ftpmaster.internal/ubuntu noble-proposed/universe riscv64 libcdt5 riscv64 2.42.2-9build1 [21.5 kB] Get:108 http://ftpmaster.internal/ubuntu noble-proposed/universe riscv64 libcgraph6 riscv64 2.42.2-9build1 [46.0 kB] Get:109 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libxpm4 riscv64 1:3.5.17-1build2 [38.2 kB] Get:110 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libgd3 riscv64 2.3.3-9ubuntu4 [134 kB] Get:111 http://ftpmaster.internal/ubuntu noble-proposed/universe riscv64 libgts-0.7-5t64 riscv64 0.7.6+darcs121130-5.2build1 [176 kB] Get:112 http://ftpmaster.internal/ubuntu noble/main riscv64 libpixman-1-0 riscv64 0.42.2-1 [165 kB] Get:113 http://ftpmaster.internal/ubuntu noble/main riscv64 libxcb-render0 riscv64 1.15-1 [13.8 kB] Get:114 http://ftpmaster.internal/ubuntu noble/main riscv64 libxcb-shm0 riscv64 1.15-1 [5326 B] Get:115 http://ftpmaster.internal/ubuntu noble/main riscv64 libxrender1 riscv64 1:0.9.10-1.1 [17.5 kB] Get:116 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libcairo2 riscv64 1.18.0-3 [613 kB] Get:117 http://ftpmaster.internal/ubuntu noble/main riscv64 libltdl7 riscv64 2.4.7-7 [40.5 kB] Get:118 http://ftpmaster.internal/ubuntu noble/main riscv64 libgraphite2-3 riscv64 1.3.14-2 [94.1 kB] Get:119 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libharfbuzz0b riscv64 8.3.0-2build2 [576 kB] Get:120 http://ftpmaster.internal/ubuntu noble/main riscv64 libthai-data all 0.1.29-2 [158 kB] Get:121 http://ftpmaster.internal/ubuntu noble/main riscv64 libdatrie1 riscv64 0.2.13-3 [22.9 kB] Get:122 http://ftpmaster.internal/ubuntu noble/main riscv64 libthai0 riscv64 0.1.29-2 [19.2 kB] Get:123 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libpango-1.0-0 riscv64 1.52.1+ds-1build1 [237 kB] Get:124 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libpangoft2-1.0-0 riscv64 1.52.1+ds-1build1 [43.5 kB] Get:125 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libpangocairo-1.0-0 riscv64 1.52.1+ds-1build1 [29.0 kB] Get:126 http://ftpmaster.internal/ubuntu noble-proposed/universe riscv64 libpathplan4 riscv64 2.42.2-9build1 [24.6 kB] Get:127 http://ftpmaster.internal/ubuntu noble-proposed/universe riscv64 libgvc6 riscv64 2.42.2-9build1 [730 kB] Get:128 http://ftpmaster.internal/ubuntu noble-proposed/universe riscv64 libgvpr2 riscv64 2.42.2-9build1 [193 kB] Get:129 http://ftpmaster.internal/ubuntu noble-proposed/universe riscv64 liblab-gamut1 riscv64 2.42.2-9build1 [1865 kB] Get:130 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libxmu6 riscv64 2:1.1.3-3build2 [49.5 kB] Get:131 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libxaw7 riscv64 2:1.0.14-1build2 [191 kB] Get:132 http://ftpmaster.internal/ubuntu noble-proposed/universe riscv64 graphviz riscv64 2.42.2-9build1 [644 kB] Get:133 http://ftpmaster.internal/ubuntu noble/universe riscv64 help2man riscv64 1.49.3 [200 kB] Get:134 http://ftpmaster.internal/ubuntu noble/universe riscv64 libapache-pom-java all 29-2 [5284 B] Get:135 http://ftpmaster.internal/ubuntu noble/main riscv64 libblas3 riscv64 3.12.0-3 [132 kB] Get:136 http://ftpmaster.internal/ubuntu noble/main riscv64 libblas-dev riscv64 3.12.0-3 [292 kB] Get:137 http://ftpmaster.internal/ubuntu noble/universe riscv64 libcommons-parent-java all 56-1 [10.7 kB] Get:138 http://ftpmaster.internal/ubuntu noble/universe riscv64 libcommons-logging-java all 1.3.0-1ubuntu1 [63.8 kB] Get:139 http://ftpmaster.internal/ubuntu noble-proposed/universe riscv64 libdlib-data all 19.24+dfsg-1.1build1 [65.2 MB] Get:140 http://ftpmaster.internal/ubuntu noble/main riscv64 libgfortran5 riscv64 14-20240330-1ubuntu2 [468 kB] Get:141 http://ftpmaster.internal/ubuntu noble/main riscv64 liblapack3 riscv64 3.12.0-3 [2299 kB] Get:142 http://ftpmaster.internal/ubuntu noble/universe riscv64 libdlib19.1t64 riscv64 19.24+dfsg-1.1 [3799 kB] Get:143 http://ftpmaster.internal/ubuntu noble/main riscv64 libglvnd0 riscv64 1.7.0-1 [94.2 kB] Get:144 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libglapi-mesa riscv64 24.0.3-1ubuntu4 [60.0 kB] Get:145 http://ftpmaster.internal/ubuntu noble/main riscv64 libx11-xcb1 riscv64 2:1.8.7-1 [7618 B] Get:146 http://ftpmaster.internal/ubuntu noble/main riscv64 libxcb-dri2-0 riscv64 1.15-1 [6400 B] Get:147 http://ftpmaster.internal/ubuntu noble/main riscv64 libxcb-dri3-0 riscv64 1.15-1 [6270 B] Get:148 http://ftpmaster.internal/ubuntu noble/main riscv64 libxcb-glx0 riscv64 1.15-1 [20.5 kB] Get:149 http://ftpmaster.internal/ubuntu noble/main riscv64 libxcb-present0 riscv64 1.15-1 [5224 B] Get:150 http://ftpmaster.internal/ubuntu noble/main riscv64 libxcb-randr0 riscv64 1.15-1 [15.0 kB] Get:151 http://ftpmaster.internal/ubuntu noble/main riscv64 libxcb-sync1 riscv64 1.15-1 [8022 B] Get:152 http://ftpmaster.internal/ubuntu noble/main riscv64 libxcb-xfixes0 riscv64 1.15-1 [8928 B] Get:153 http://ftpmaster.internal/ubuntu noble/main riscv64 libxfixes3 riscv64 1:6.0.0-2 [9620 B] Get:154 http://ftpmaster.internal/ubuntu noble/main riscv64 libxshmfence1 riscv64 1.3-1build4 [4976 B] Get:155 http://ftpmaster.internal/ubuntu noble/main riscv64 libxxf86vm1 riscv64 1:1.1.4-1build3 [9744 B] Get:156 http://ftpmaster.internal/ubuntu noble/main riscv64 libvulkan1 riscv64 1.3.275.0-1 [153 kB] Get:157 http://ftpmaster.internal/ubuntu noble/main riscv64 libdrm-amdgpu1 riscv64 2.4.120-2 [21.3 kB] Get:158 http://ftpmaster.internal/ubuntu noble/main riscv64 libdrm-nouveau2 riscv64 2.4.120-2 [18.2 kB] Get:159 http://ftpmaster.internal/ubuntu noble/main riscv64 libdrm-radeon1 riscv64 2.4.120-2 [23.1 kB] Get:160 http://ftpmaster.internal/ubuntu noble/main riscv64 libllvm17t64 riscv64 1:17.0.6-9build2 [25.6 MB] Get:161 http://ftpmaster.internal/ubuntu noble/main riscv64 libsensors-config all 1:3.6.0-9build1 [5546 B] Get:162 http://ftpmaster.internal/ubuntu noble/main riscv64 libsensors5 riscv64 1:3.6.0-9build1 [28.1 kB] Get:163 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libgl1-mesa-dri riscv64 24.0.3-1ubuntu4 [6751 kB] Get:164 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libglx-mesa0 riscv64 24.0.3-1ubuntu4 [187 kB] Get:165 http://ftpmaster.internal/ubuntu noble/main riscv64 libglx0 riscv64 1.7.0-1 [31.2 kB] Get:166 http://ftpmaster.internal/ubuntu noble/universe riscv64 libtbbmalloc2 riscv64 2021.11.0-2ubuntu2 [46.2 kB] Get:167 http://ftpmaster.internal/ubuntu noble/universe riscv64 libhwloc15 riscv64 2.10.0-1 [169 kB] Get:168 http://ftpmaster.internal/ubuntu noble/universe riscv64 libtbbbind-2-5 riscv64 2021.11.0-2ubuntu2 [15.8 kB] Get:169 http://ftpmaster.internal/ubuntu noble/universe riscv64 libtbb12 riscv64 2021.11.0-2ubuntu2 [81.8 kB] Get:170 http://ftpmaster.internal/ubuntu noble/universe riscv64 libopencv-core406t64 riscv64 4.6.0+dfsg-13.1build2 [1053 kB] Get:171 http://ftpmaster.internal/ubuntu noble/universe riscv64 libtbb-dev riscv64 2021.11.0-2ubuntu2 [253 kB] Get:172 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 zlib1g-dev riscv64 1:1.3.dfsg-3.1ubuntu2 [968 kB] Get:173 http://ftpmaster.internal/ubuntu noble/universe riscv64 libopencv-core-dev riscv64 4.6.0+dfsg-13.1build2 [5310 kB] Get:174 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libpng-dev riscv64 1.6.43-5build1 [462 kB] Get:175 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libsqlite3-dev riscv64 3.45.1-1ubuntu2 [2361 kB] Get:176 http://ftpmaster.internal/ubuntu noble/main riscv64 xorg-sgml-doctools all 1:1.11-1.1 [10.9 kB] Get:177 http://ftpmaster.internal/ubuntu noble/main riscv64 x11proto-dev all 2023.2-1 [602 kB] Get:178 http://ftpmaster.internal/ubuntu noble/main riscv64 libxau-dev riscv64 1:1.0.9-1build5 [12.9 kB] Get:179 http://ftpmaster.internal/ubuntu noble/main riscv64 libxdmcp-dev riscv64 1:1.1.3-0ubuntu5 [36.1 kB] Get:180 http://ftpmaster.internal/ubuntu noble/main riscv64 xtrans-dev all 1.4.0-1 [68.9 kB] Get:181 http://ftpmaster.internal/ubuntu noble/main riscv64 libpthread-stubs0-dev riscv64 0.4-1build2 [5500 B] Get:182 http://ftpmaster.internal/ubuntu noble/main riscv64 libxcb1-dev riscv64 1.15-1 [151 kB] Get:183 http://ftpmaster.internal/ubuntu noble/main riscv64 libx11-dev riscv64 2:1.8.7-1 [1382 kB] Get:184 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libpython3.12t64 riscv64 3.12.2-5ubuntu3 [2407 kB] Get:185 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libexpat1-dev riscv64 2.6.1-2build1 [317 kB] Get:186 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libpython3.12-dev riscv64 3.12.2-5ubuntu3 [17.2 MB] Get:187 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libpython3-dev riscv64 3.12.2-0ubuntu2 [10.1 kB] Get:188 http://ftpmaster.internal/ubuntu noble/universe riscv64 pybind11-dev all 2.11.1-2 [159 kB] Get:189 http://ftpmaster.internal/ubuntu noble/universe riscv64 libdlib-dev riscv64 19.24+dfsg-1.1 [4115 kB] Get:190 http://ftpmaster.internal/ubuntu noble/main riscv64 libgmpxx4ldbl riscv64 2:6.3.0+dfsg-2ubuntu4 [9858 B] Get:191 http://ftpmaster.internal/ubuntu noble/main riscv64 libgmp-dev riscv64 2:6.3.0+dfsg-2ubuntu4 [792 kB] Get:192 http://ftpmaster.internal/ubuntu noble/universe riscv64 libgslcblas0 riscv64 2.7.1+dfsg-6ubuntu1 [86.6 kB] Get:193 http://ftpmaster.internal/ubuntu noble/universe riscv64 libgsl27 riscv64 2.7.1+dfsg-6ubuntu1 [1026 kB] Get:194 http://ftpmaster.internal/ubuntu noble/universe riscv64 libgsl-dev riscv64 2.7.1+dfsg-6ubuntu1 [3628 kB] Get:195 http://ftpmaster.internal/ubuntu noble/main riscv64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [328 kB] Get:196 http://ftpmaster.internal/ubuntu noble/main riscv64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [118 kB] Get:197 http://ftpmaster.internal/ubuntu noble/main riscv64 libjs-sphinxdoc all 7.2.6-6 [149 kB] Get:198 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libkpathsea6 riscv64 2023.20230311.66589-9build3 [66.1 kB] Get:199 http://ftpmaster.internal/ubuntu noble/main riscv64 liblapack-dev riscv64 3.12.0-3 [13.4 MB] Get:200 http://ftpmaster.internal/ubuntu noble/main riscv64 libmpfr-dev riscv64 4.2.1-1 [773 kB] Get:201 http://ftpmaster.internal/ubuntu noble/main riscv64 libpaper-utils riscv64 1.1.29 [8248 B] Get:202 http://ftpmaster.internal/ubuntu noble/main riscv64 libpkgconf3 riscv64 1.8.1-2 [27.8 kB] Get:203 http://ftpmaster.internal/ubuntu noble/universe riscv64 libpotrace0 riscv64 1.16-2 [15.3 kB] Get:204 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libptexenc1 riscv64 2023.20230311.66589-9build3 [40.6 kB] Get:205 http://ftpmaster.internal/ubuntu noble/universe riscv64 libsvm3 riscv64 3.24+ds-6ubuntu2 [42.8 kB] Get:206 http://ftpmaster.internal/ubuntu noble/universe riscv64 libsvm-dev riscv64 3.24+ds-6ubuntu2 [94.3 kB] Get:207 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libsynctex2 riscv64 2023.20230311.66589-9build3 [61.2 kB] Get:208 http://ftpmaster.internal/ubuntu noble/universe riscv64 libteckit0 riscv64 2.5.12+ds1-1 [359 kB] Get:209 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libtexlua53-5 riscv64 2023.20230311.66589-9build3 [124 kB] Get:210 http://ftpmaster.internal/ubuntu noble/universe riscv64 libtext-unidecode-perl all 1.30-3 [105 kB] Get:211 http://ftpmaster.internal/ubuntu noble/main riscv64 libxi6 riscv64 2:1.8.1-1 [34.8 kB] Get:212 http://ftpmaster.internal/ubuntu noble/main riscv64 libxml-namespacesupport-perl all 1.12-2 [13.5 kB] Get:213 http://ftpmaster.internal/ubuntu noble/main riscv64 libxml-sax-base-perl all 1.09-3 [18.9 kB] Get:214 http://ftpmaster.internal/ubuntu noble/main riscv64 libxml-sax-perl all 1.02+dfsg-3 [57.0 kB] Get:215 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libxml-libxml-perl riscv64 2.0207+dfsg+really+2.0134-1build4 [308 kB] Get:216 http://ftpmaster.internal/ubuntu noble-proposed/universe riscv64 libzzip-0-13t64 riscv64 0.13.72+dfsg.1-1.2build1 [29.9 kB] Get:217 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 perl-doc all 5.38.2-3.2build1 [7833 kB] Get:218 http://ftpmaster.internal/ubuntu noble/main riscv64 pkgconf-bin riscv64 1.8.1-2 [20.4 kB] Get:219 http://ftpmaster.internal/ubuntu noble/main riscv64 pkgconf riscv64 1.8.1-2 [16.7 kB] Get:220 http://ftpmaster.internal/ubuntu noble/main riscv64 pkg-config riscv64 1.8.1-2 [7172 B] Get:221 http://ftpmaster.internal/ubuntu noble/universe riscv64 tex-common all 6.18 [32.8 kB] Get:222 http://ftpmaster.internal/ubuntu noble/universe riscv64 preview-latex-style all 13.2-1 [347 kB] Get:223 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 python3.12-dev riscv64 3.12.2-5ubuntu3 [498 kB] Get:224 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 python3-dev riscv64 3.12.2-0ubuntu2 [26.7 kB] Get:225 http://ftpmaster.internal/ubuntu noble/universe riscv64 swig riscv64 4.2.0-2ubuntu1 [1140 kB] Get:226 http://ftpmaster.internal/ubuntu noble/main riscv64 t1utils riscv64 1.41-4build2 [55.5 kB] Get:227 http://ftpmaster.internal/ubuntu noble-proposed/universe riscv64 texinfo-lib riscv64 7.1-3build2 [137 kB] Get:228 http://ftpmaster.internal/ubuntu noble-proposed/universe riscv64 texinfo all 7.1-3build2 [1273 kB] Get:229 http://ftpmaster.internal/ubuntu noble-proposed/universe riscv64 texlive-binaries riscv64 2023.20230311.66589-9build3 [8839 kB] Get:230 http://ftpmaster.internal/ubuntu noble/main riscv64 xdg-utils all 1.1.3-4.1ubuntu3 [62.0 kB] Get:231 http://ftpmaster.internal/ubuntu noble/universe riscv64 texlive-base all 2023.20240207-1 [21.7 MB] Get:232 http://ftpmaster.internal/ubuntu noble/universe riscv64 texlive-latex-base all 2023.20240207-1 [1238 kB] Get:233 http://ftpmaster.internal/ubuntu noble/universe riscv64 libfontbox-java all 1:1.8.16-5 [208 kB] Get:234 http://ftpmaster.internal/ubuntu noble/universe riscv64 libpdfbox-java all 1:1.8.16-5 [5521 kB] Get:235 http://ftpmaster.internal/ubuntu noble/universe riscv64 texlive-latex-recommended all 2023.20240207-1 [8826 kB] Get:236 http://ftpmaster.internal/ubuntu noble/universe riscv64 texlive-pictures all 2023.20240207-1 [16.7 MB] Get:237 http://ftpmaster.internal/ubuntu noble/universe riscv64 texlive-latex-extra all 2023.20240207-1 [19.2 MB] Preconfiguring packages ... Fetched 376 MB in 1min 30s (4174 kB/s) Selecting previously unselected package libpython3.12-minimal:riscv64. (Reading database ... 15732 files and directories currently installed.) Preparing to unpack .../libpython3.12-minimal_3.12.2-5ubuntu3_riscv64.deb ... Unpacking libpython3.12-minimal:riscv64 (3.12.2-5ubuntu3) ... Selecting previously unselected package libexpat1:riscv64. Preparing to unpack .../libexpat1_2.6.1-2build1_riscv64.deb ... Unpacking libexpat1:riscv64 (2.6.1-2build1) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../python3.12-minimal_3.12.2-5ubuntu3_riscv64.deb ... Unpacking python3.12-minimal (3.12.2-5ubuntu3) ... Setting up libpython3.12-minimal:riscv64 (3.12.2-5ubuntu3) ... Setting up libexpat1:riscv64 (2.6.1-2build1) ... Setting up python3.12-minimal (3.12.2-5ubuntu3) ... Selecting previously unselected package python3-minimal. (Reading database ... 16050 files and directories currently installed.) 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Setting up libgraphite2-3:riscv64 (1.3.14-2) ... Setting up libtbbmalloc2:riscv64 (2021.11.0-2ubuntu2) ... Setting up libpixman-1-0:riscv64 (0.42.2-1) ... Setting up libxapian30:riscv64 (1.4.22-1) ... Setting up libsharpyuv0:riscv64 (1.3.2-0.4build3) ... Setting up libxau6:riscv64 (1:1.0.9-1build5) ... Setting up swig (4.2.0-2ubuntu1) ... Setting up gengetopt (2.23+dfsg1-1) ... Setting up liblerc4:riscv64 (4.0.0+ds-4ubuntu1) ... Setting up libdatrie1:riscv64 (0.2.13-3) ... Setting up libgslcblas0:riscv64 (2.7.1+dfsg-6ubuntu1) ... Setting up libmagic-mgc (1:5.45-3build1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglvnd0:riscv64 (1.7.0-1) ... Setting up libijs-0.35:riscv64 (0.35-15.1) ... Setting up libdebhelper-perl (13.14.1ubuntu5) ... Setting up libgs-common (10.02.1~dfsg1-0ubuntu6) ... Setting up libbrotli1:riscv64 (1.1.0-2build2) ... Setting up libfontbox-java (1:1.8.16-5) ... Setting up liblab-gamut1:riscv64 (2.42.2-9build1) ... Setting up libmagic1t64:riscv64 (1:5.45-3build1) ... Setting up x11-common (1:7.7+23ubuntu2) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Setting up libsensors-config (1:3.6.0-9build1) ... Setting up libdeflate0:riscv64 (1.19-1) ... Setting up perl-doc (5.38.2-3.2build1) ... Setting up libxml-namespacesupport-perl (1.12-2) ... Setting up gettext-base (0.21-14ubuntu1) ... Setting up libgsl27:riscv64 (2.7.1+dfsg-6ubuntu1) ... Setting up m4 (1.4.19-4) ... Setting up file (1:5.45-3build1) ... Setting up texinfo-lib (7.1-3build2) ... Setting up cthreadpool-dev (0.0+git20231218.4eb5a69-1build1) ... Setting up libpthread-stubs0-dev:riscv64 (0.4-1build2) ... Setting up libjbig0:riscv64 (2.1-6.1ubuntu1) ... Setting up xxd (2:9.1.0016-1ubuntu7) ... Setting up libelf1t64:riscv64 (0.190-1.1build3) ... Setting up poppler-data (0.4.12-1) ... Setting up libdw1t64:riscv64 (0.190-1.1build3) ... Setting up help2man (1.49.3) ... Setting up libxml-sax-base-perl (1.09-3) ... Setting up xtrans-dev (1.4.0-1) ... Setting up libfontenc1:riscv64 (1:1.1.8-1build1) ... Setting up autotools-dev (20220109.1) ... Setting up libglib2.0-0t64:riscv64 (2.80.0-6ubuntu1) ... No schema files found: doing nothing. Setting up libblas3:riscv64 (3.12.0-3) ... update-alternatives: using /usr/lib/riscv64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/riscv64-linux-gnu/libblas.so.3 (libblas.so.3-riscv64-linux-gnu) in auto mode Setting up libpkgconf3:riscv64 (1.8.1-2) ... Setting up libgmpxx4ldbl:riscv64 (2:6.3.0+dfsg-2ubuntu4) ... Setting up libexpat1-dev:riscv64 (2.6.1-2build1) ... Setting up libzzip-0-13t64:riscv64 (0.13.72+dfsg.1-1.2build1) ... Setting up libsqlite3-dev:riscv64 (3.45.1-1ubuntu2) ... Setting up libfreetype6:riscv64 (2.13.2+dfsg-1build3) ... Setting up libx11-data (2:1.8.7-1) ... Setting up libjbig2dec0:riscv64 (0.20-1build3) ... Setting up libteckit0:riscv64 (2.5.12+ds1-1) ... 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Setting up libgfortran5:riscv64 (14-20240330-1ubuntu2) ... Setting up libvulkan1:riscv64 (1.3.275.0-1) ... Setting up autoconf (2.71-3) ... Setting up libwebp7:riscv64 (1.3.2-0.4build3) ... Setting up libfmt9:riscv64 (9.1.0+ds1-2) ... Setting up libicu74:riscv64 (74.2-1ubuntu1) ... Setting up zlib1g-dev:riscv64 (1:1.3.dfsg-3.1ubuntu2) ... Setting up dwz (0.15-1build6) ... Setting up libxshmfence1:riscv64 (1.3-1build4) ... Setting up libuchardet0:riscv64 (0.0.8-1) ... Setting up debugedit (1:5.0-5build1) ... Setting up fonts-lmodern (2.005-1) ... Setting up libopenjp2-7:riscv64 (2.5.0-2build3) ... Setting up libsub-override-perl (0.10-1) ... Setting up libharfbuzz0b:riscv64 (8.3.0-2build2) ... Setting up libthai-data (0.1.29-2) ... Setting up xorg-sgml-doctools (1:1.11-1.1) ... Setting up netbase (6.4) ... Setting up libgts-0.7-5t64:riscv64 (0.7.6+darcs121130-5.2build1) ... Setting up libcdt5:riscv64 (2.42.2-9build1) ... Setting up libcgraph6:riscv64 (2.42.2-9build1) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up libtext-unidecode-perl (1.30-3) ... Setting up libbsd0:riscv64 (0.12.1-1build1) ... Setting up libdrm-common (2.4.120-2) ... Setting up libxml2:riscv64 (2.9.14+dfsg-1.3ubuntu3) ... Setting up libdlib-data (19.24+dfsg-1.1build1) ... Setting up xdg-utils (1.1.3-4.1ubuntu3) ... update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode Setting up libblas-dev:riscv64 (3.12.0-3) ... update-alternatives: using /usr/lib/riscv64-linux-gnu/blas/libblas.so to provide /usr/lib/riscv64-linux-gnu/libblas.so (libblas.so-riscv64-linux-gnu) in auto mode Setting up libsvm3:riscv64 (3.24+ds-6ubuntu2) ... Setting up libsynctex2:riscv64 (2023.20230311.66589-9build3) ... Setting up libjs-underscore (1.13.4~dfsg+~1.11.4-3) ... Setting up libpotrace0:riscv64 (1.16-2) ... Setting up libjpeg8:riscv64 (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 (2023.2-1) ... Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up libpaper1:riscv64 (1.1.29) ... Creating config file /etc/papersize with new version Setting up libice6:riscv64 (2:1.0.10-1build2) ... Setting up libxdmcp6:riscv64 (1:1.1.3-0ubuntu5) ... Setting up liblapack3:riscv64 (3.12.0-3) ... update-alternatives: using /usr/lib/riscv64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/riscv64-linux-gnu/liblapack.so.3 (liblapack.so.3-riscv64-linux-gnu) in auto mode Setting up libxcb1:riscv64 (1.15-1) ... Setting up gettext (0.21-14ubuntu1) ... Setting up libgsl-dev (2.7.1+dfsg-6ubuntu1) ... Setting up libgmp-dev:riscv64 (2:6.3.0+dfsg-2ubuntu4) ... Setting up libxcb-xfixes0:riscv64 (1.15-1) ... Setting up libpdfbox-java (1:1.8.16-5) ... Setting up libxau-dev:riscv64 (1:1.0.9-1build5) ... Setting up libpython3.12-stdlib:riscv64 (3.12.2-5ubuntu3) ... Setting up libtool (2.4.7-7) ... Setting up libxcb-render0:riscv64 (1.15-1) ... Setting up fontconfig-config (2.15.0-1.1ubuntu2) ... Setting up libxcb-glx0:riscv64 (1.15-1) ... Setting up python3.12 (3.12.2-5ubuntu3) ... Setting up libedit2:riscv64 (3.1-20230828-1) ... Setting up libpng-dev:riscv64 (1.6.43-5build1) ... Setting up libcommons-parent-java (56-1) ... Setting up libavahi-common3:riscv64 (0.8-13ubuntu5) ... Setting up libcommons-logging-java (1.3.0-1ubuntu1) ... Setting up libxcb-shm0:riscv64 (1.15-1) ... Setting up libpaper-utils (1.1.29) ... Setting up xfonts-utils (1:7.7+6build2) ... Setting up libmpfr-dev:riscv64 (4.2.1-1) ... Setting up libxml-sax-perl (1.02+dfsg-3) ... update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::PurePerl with priority 10... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up pkgconf:riscv64 (1.8.1-2) ... Setting up libtbbbind-2-5:riscv64 (2021.11.0-2ubuntu2) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up libxcb-present0:riscv64 (1.15-1) ... Setting up libpython3.12t64:riscv64 (3.12.2-5ubuntu3) ... Setting up dh-autoreconf (20) ... Setting up tex-common (6.18) ... update-language: texlive-base not installed and configured, doing nothing! Setting up libthai0:riscv64 (0.1.29-2) ... Setting up libxdmcp-dev:riscv64 (1:1.1.3-0ubuntu5) ... Setting up libdlib19.1t64:riscv64 (19.24+dfsg-1.1) ... Setting up libptexenc1:riscv64 (2023.20230311.66589-9build3) ... Setting up libllvm17t64:riscv64 (1:17.0.6-9build2) ... Setting up libxcb-sync1:riscv64 (1.15-1) ... Setting up libsvm-dev:riscv64 (3.24+ds-6ubuntu2) ... Setting up liblapack-dev:riscv64 (3.12.0-3) ... update-alternatives: using /usr/lib/riscv64-linux-gnu/lapack/liblapack.so to provide /usr/lib/riscv64-linux-gnu/liblapack.so (liblapack.so-riscv64-linux-gnu) in auto mode Setting up pkg-config:riscv64 (1.8.1-2) ... Setting up libjs-sphinxdoc (7.2.6-6) ... Setting up libxml-libxml-perl (2.0207+dfsg+really+2.0134-1build4) ... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libxcb-dri2-0:riscv64 (1.15-1) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up libgvpr2:riscv64 (2.42.2-9build1) ... Setting up libdrm2:riscv64 (2.4.120-2) ... Setting up groff-base (1.23.0-3build2) ... Setting up libtiff6:riscv64 (4.5.1+git230720-4ubuntu2) ... Setting up libxcb-randr0:riscv64 (1.15-1) ... Setting up libx11-6:riscv64 (2:1.8.7-1) ... Setting up libfontconfig1:riscv64 (2.15.0-1.1ubuntu2) ... Setting up libsm6:riscv64 (2:1.2.3-1build2) ... Setting up libavahi-client3:riscv64 (0.8-13ubuntu5) ... Setting up libpython3-stdlib:riscv64 (3.12.2-0ubuntu2) ... Setting up libllvm18:riscv64 (1:18.1.2-1ubuntu2) ... Setting up libdrm-amdgpu1:riscv64 (2.4.120-2) ... Setting up libxcb-dri3-0:riscv64 (1.15-1) ... Setting up libclang1-18 (1:18.1.2-1ubuntu2) ... Setting up libx11-xcb1:riscv64 (2:1.8.7-1) ... Setting up fontconfig (2.15.0-1.1ubuntu2) ... Regenerating fonts cache... done. Setting up libdrm-nouveau2:riscv64 (2.4.120-2) ... Setting up libxcb1-dev:riscv64 (1.15-1) ... Setting up libxpm4:riscv64 (1:3.5.17-1build2) ... Setting up libxrender1:riscv64 (1:0.9.10-1.1) ... Setting up libdrm-radeon1:riscv64 (2.4.120-2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up preview-latex-style (13.2-1) ... Setting up libpango-1.0-0:riscv64 (1.52.1+ds-1build1) ... Setting up libgl1-mesa-dri:riscv64 (24.0.3-1ubuntu4) ... Setting up libx11-dev:riscv64 (2:1.8.7-1) ... Setting up libxext6:riscv64 (2:1.3.4-1build1) ... Setting up python3 (3.12.2-0ubuntu2) ... Setting up libpython3.12-dev:riscv64 (3.12.2-5ubuntu3) ... Setting up libtbb12:riscv64 (2021.11.0-2ubuntu2) ... Setting up fonts-urw-base35 (20200910-8) ... Setting up man-db (2.12.0-4build1) ... 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 libcairo2:riscv64 (1.18.0-3) ... Setting up libxxf86vm1:riscv64 (1:1.1.4-1build3) ... Setting up libxfixes3:riscv64 (1:6.0.0-2) ... Setting up libxt6t64:riscv64 (1:1.2.1-1.2build1) ... Setting up libgd3:riscv64 (2.3.3-9ubuntu4) ... Setting up python3.12-dev (3.12.2-5ubuntu3) ... Setting up texinfo (7.1-3build2) ... Running mktexlsr. This may take some time. ... done. Setting up libtbb-dev:riscv64 (2021.11.0-2ubuntu2) ... Setting up libpangoft2-1.0-0:riscv64 (1.52.1+ds-1build1) ... Setting up libclang-cpp18 (1:18.1.2-1ubuntu2) ... Setting up libcups2t64:riscv64 (2.4.7-1.2ubuntu3) ... Setting up libpangocairo-1.0-0:riscv64 (1.52.1+ds-1build1) ... Setting up python3-pkg-resources (68.1.2-2ubuntu1) ... Setting up libgs10-common (10.02.1~dfsg1-0ubuntu6) ... Setting up libxmu6:riscv64 (2:1.1.3-3build2) ... Setting up libglx-mesa0:riscv64 (24.0.3-1ubuntu4) ... Setting up libpython3-dev:riscv64 (3.12.2-0ubuntu2) ... Setting up python3-setuptools (68.1.2-2ubuntu1) ... Setting up libxi6:riscv64 (2:1.8.1-1) ... Setting up libglx0:riscv64 (1.7.0-1) ... Setting up debhelper (13.14.1ubuntu5) ... Setting up libxaw7:riscv64 (2:1.0.14-1build2) ... Setting up pybind11-dev (2.11.1-2) ... Setting up doxygen (1.9.8+ds-2build5) ... Setting up python3-dev (3.12.2-0ubuntu2) ... Setting up libgvc6 (2.42.2-9build1) ... Setting up texlive-binaries (2023.20230311.66589-9build3) ... update-alternatives: using /usr/bin/xdvi-xaw to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode update-alternatives: using /usr/bin/bibtex.original to provide /usr/bin/bibtex (bibtex) in auto mode Setting up texlive-base (2023.20240207-1) ... tl-paper: setting paper size for dvips to a4: /var/lib/texmf/dvips/config/config-paper.ps tl-paper: setting paper size for dvipdfmx to a4: /var/lib/texmf/dvipdfmx/dvipdfmx-paper.cfg tl-paper: setting paper size for xdvi to a4: /var/lib/texmf/xdvi/XDvi-paper tl-paper: setting paper size for pdftex to a4: /var/lib/texmf/tex/generic/tex-ini-files/pdftexconfig.tex Setting up libopencv-core406t64:riscv64 (4.6.0+dfsg-13.1build2) ... Setting up libgs10:riscv64 (10.02.1~dfsg1-0ubuntu6) ... Setting up dh-python (6.20240401) ... Setting up graphviz (2.42.2-9build1) ... Setting up ghostscript (10.02.1~dfsg1-0ubuntu6) ... Setting up texlive-latex-base (2023.20240207-1) ... Setting up texlive-latex-recommended (2023.20240207-1) ... Setting up texlive-pictures (2023.20240207-1) ... Setting up libopencv-core-dev:riscv64 (4.6.0+dfsg-13.1build2) ... Setting up texlive-latex-extra (2023.20240207-1) ... Setting up libdlib-dev:riscv64 (19.24+dfsg-1.1) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for systemd (255.4-1ubuntu6) ... Processing triggers for libc-bin (2.39-0ubuntu8) ... Processing triggers for tex-common (6.18) ... Running updmap-sys. This may take some time... done. Running mktexlsr /var/lib/texmf ... done. Building format(s) --all. This may take some time... done. +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (riscv64 included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 6.5.0-26-generic #26.1~22.04.1-Ubuntu SMP Thu Mar 14 04:00:07 UTC 2024 riscv64 (riscv64) Toolchain package versions: binutils_2.42-4ubuntu2 dpkg-dev_1.22.6ubuntu6 g++-13_13.2.0-23ubuntu3 gcc-13_13.2.0-23ubuntu3 libc6-dev_2.39-0ubuntu8 libstdc++-13-dev_13.2.0-23ubuntu3 libstdc++6_14-20240330-1ubuntu2 linux-libc-dev_6.8.0-20.20 Package versions: adduser_3.137ubuntu1 advancecomp_2.5-1 apt_2.7.14build2 apt-utils_2.7.14build2 autoconf_2.71-3 automake_1:1.16.5-1.3ubuntu1 autopoint_0.21-14ubuntu1 autotools-dev_20220109.1 base-files_13ubuntu9 base-passwd_3.6.3 bash_5.2.21-2ubuntu4 bash-completion_1:2.11-8 binutils_2.42-4ubuntu2 binutils-common_2.42-4ubuntu2 binutils-riscv64-linux-gnu_2.42-4ubuntu2 bsdextrautils_2.39.3-9ubuntu4 bsdutils_1:2.39.3-9ubuntu4 build-essential_12.10ubuntu1 bzip2_1.0.8-5.1 ca-certificates_20240203 coreutils_9.4-3ubuntu5 cpp_4:13.2.0-7ubuntu1 cpp-13_13.2.0-23ubuntu3 cpp-13-riscv64-linux-gnu_13.2.0-23ubuntu3 cpp-riscv64-linux-gnu_4:13.2.0-7ubuntu1 cthreadpool-dev_0.0+git20231218.4eb5a69-1build1 dash_0.5.12-6ubuntu5 debconf_1.5.86 debconf-i18n_1.5.86 debhelper_13.14.1ubuntu5 debianutils_5.17build1 debugedit_1:5.0-5build1 dh-autoreconf_20 dh-python_6.20240401 dh-strip-nondeterminism_1.13.1-1 diffutils_1:3.10-1 doxygen_1.9.8+ds-2build5 dpkg_1.22.6ubuntu6 dpkg-dev_1.22.6ubuntu6 dwz_0.15-1build6 e2fsprogs_1.47.0-2.4~exp1ubuntu3 fakeroot_1.33-1 file_1:5.45-3build1 findutils_4.9.0-5 fontconfig_2.15.0-1.1ubuntu2 fontconfig-config_2.15.0-1.1ubuntu2 fonts-dejavu-core_2.37-8 fonts-dejavu-mono_2.37-8 fonts-lmodern_2.005-1 fonts-urw-base35_20200910-8 g++_4:13.2.0-7ubuntu1 g++-13_13.2.0-23ubuntu3 g++-13-riscv64-linux-gnu_13.2.0-23ubuntu3 g++-riscv64-linux-gnu_4:13.2.0-7ubuntu1 gcc_4:13.2.0-7ubuntu1 gcc-13_13.2.0-23ubuntu3 gcc-13-base_13.2.0-23ubuntu3 gcc-13-riscv64-linux-gnu_13.2.0-23ubuntu3 gcc-14-base_14-20240330-1ubuntu2 gcc-riscv64-linux-gnu_4:13.2.0-7ubuntu1 gengetopt_2.23+dfsg1-1 gettext_0.21-14ubuntu1 gettext-base_0.21-14ubuntu1 ghostscript_10.02.1~dfsg1-0ubuntu6 gpg_2.4.4-2ubuntu16 gpg-agent_2.4.4-2ubuntu16 gpgconf_2.4.4-2ubuntu16 gpgv_2.4.4-2ubuntu16 graphviz_2.42.2-9build1 grep_3.11-4 groff-base_1.23.0-3build2 gzip_1.12-1ubuntu2 help2man_1.49.3 hostname_3.23+nmu2ubuntu1 init_1.66ubuntu1 init-system-helpers_1.66ubuntu1 intltool-debian_0.35.0+20060710.6 krb5-locales_1.20.1-6ubuntu2 libacl1_2.3.2-1 libann0_1.1.2+doc-9 libapache-pom-java_29-2 libapparmor1_4.0.0-beta3-0ubuntu3 libapt-pkg6.0t64_2.7.14build2 libarchive-zip-perl_1.68-1 libargon2-1_0~20190702+dfsg-4 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libtbbmalloc2_2021.11.0-2ubuntu2 libteckit0_2.5.12+ds1-1 libtexlua53-5_2023.20230311.66589-9build3 libtext-charwidth-perl_0.04-11build3 libtext-iconv-perl_1.7-8build3 libtext-unidecode-perl_1.30-3 libtext-wrapi18n-perl_0.06-10 libthai-data_0.1.29-2 libthai0_0.1.29-2 libtiff6_4.5.1+git230720-4ubuntu2 libtinfo6_6.4+20240113-1ubuntu1 libtirpc-common_1.3.4+ds-1.1build1 libtirpc-dev_1.3.4+ds-1.1build1 libtirpc3t64_1.3.4+ds-1.1build1 libtool_2.4.7-7 libubsan1_14-20240330-1ubuntu2 libuchardet0_0.0.8-1 libudev1_255.4-1ubuntu6 libunistring2_1.0-2 libunistring5_1.1-2 libuuid1_2.39.3-9ubuntu4 libvulkan1_1.3.275.0-1 libwebp7_1.3.2-0.4build3 libx11-6_2:1.8.7-1 libx11-data_2:1.8.7-1 libx11-dev_2:1.8.7-1 libx11-xcb1_2:1.8.7-1 libxapian30_1.4.22-1 libxau-dev_1:1.0.9-1build5 libxau6_1:1.0.9-1build5 libxaw7_2:1.0.14-1build2 libxcb-dri2-0_1.15-1 libxcb-dri3-0_1.15-1 libxcb-glx0_1.15-1 libxcb-present0_1.15-1 libxcb-randr0_1.15-1 libxcb-render0_1.15-1 libxcb-shm0_1.15-1 libxcb-sync1_1.15-1 libxcb-xfixes0_1.15-1 libxcb1_1.15-1 libxcb1-dev_1.15-1 libxdmcp-dev_1:1.1.3-0ubuntu5 libxdmcp6_1:1.1.3-0ubuntu5 libxext6_2:1.3.4-1build1 libxfixes3_1:6.0.0-2 libxi6_2:1.8.1-1 libxml-libxml-perl_2.0207+dfsg+really+2.0134-1build4 libxml-namespacesupport-perl_1.12-2 libxml-sax-base-perl_1.09-3 libxml-sax-perl_1.02+dfsg-3 libxml2_2.9.14+dfsg-1.3ubuntu3 libxmu6_2:1.1.3-3build2 libxpm4_1:3.5.17-1build2 libxrender1_1:0.9.10-1.1 libxshmfence1_1.3-1build4 libxt6t64_1:1.2.1-1.2build1 libxxf86vm1_1:1.1.4-1build3 libxxhash0_0.8.2-2 libzstd1_1.5.5+dfsg2-2 libzzip-0-13t64_0.13.72+dfsg.1-1.2build1 linux-libc-dev_6.8.0-20.20 lockfile-progs_0.1.19build1 login_1:4.13+dfsg1-4ubuntu1 logsave_1.47.0-2.4~exp1ubuntu3 lto-disabled-list_47 m4_1.4.19-4 make_4.3-4.1build1 man-db_2.12.0-4build1 mawk_1.3.4.20240123-1 media-types_10.1.0 mount_2.39.3-9ubuntu4 ncurses-base_6.4+20240113-1ubuntu1 ncurses-bin_6.4+20240113-1ubuntu1 netbase_6.4 openssl_3.0.13-0ubuntu3 optipng_0.7.8+ds-1build2 passwd_1:4.13+dfsg1-4ubuntu1 patch_2.7.6-7build2 perl_5.38.2-3.2build1 perl-base_5.38.2-3.2build1 perl-doc_5.38.2-3.2build1 perl-modules-5.36_5.36.0-9ubuntu1 perl-modules-5.38_5.38.2-3.2build1 pinentry-curses_1.2.1-3ubuntu5 pkg-config_1.8.1-2 pkgbinarymangler_154 pkgconf_1.8.1-2 pkgconf-bin_1.8.1-2 po-debconf_1.0.21+nmu1 policyrcd-script-zg2_0.1-3.1 poppler-data_0.4.12-1 preview-latex-style_13.2-1 procps_2:4.0.4-4ubuntu3 psmisc_23.7-1build1 pybind11-dev_2.11.1-2 python3_3.12.2-0ubuntu2 python3-dev_3.12.2-0ubuntu2 python3-minimal_3.12.2-0ubuntu2 python3-pkg-resources_68.1.2-2ubuntu1 python3-setuptools_68.1.2-2ubuntu1 python3.12_3.12.2-5ubuntu3 python3.12-dev_3.12.2-5ubuntu3 python3.12-minimal_3.12.2-5ubuntu3 readline-common_8.2-4build1 rpcsvc-proto_1.4.2-0ubuntu6 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.9-2 sensible-utils_0.0.22 swig_4.2.0-2ubuntu1 systemd_255.4-1ubuntu6 systemd-dev_255.4-1ubuntu6 systemd-sysv_255.4-1ubuntu6 sysvinit-utils_3.08-6ubuntu2 t1utils_1.41-4build2 tar_1.35+dfsg-3 tex-common_6.18 texinfo_7.1-3build2 texinfo-lib_7.1-3build2 texlive-base_2023.20240207-1 texlive-binaries_2023.20230311.66589-9build3 texlive-latex-base_2023.20240207-1 texlive-latex-extra_2023.20240207-1 texlive-latex-recommended_2023.20240207-1 texlive-pictures_2023.20240207-1 tzdata_2024a-1ubuntu1 ubuntu-keyring_2023.11.28.1 ucf_3.0043+nmu1 util-linux_2.39.3-9ubuntu4 uuid-runtime_2.39.3-9ubuntu4 x11-common_1:7.7+23ubuntu2 x11proto-dev_2023.2-1 xdg-utils_1.1.3-4.1ubuntu3 xfonts-encodings_1:1.0.5-0ubuntu2 xfonts-utils_1:7.7+6build2 xorg-sgml-doctools_1:1.11-1.1 xtrans-dev_1.4.0-1 xxd_2:9.1.0016-1ubuntu7 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: SHA512 Format: 3.0 (quilt) Source: vienna-rna Binary: vienna-rna, python3-rna, librna-perl Architecture: any Version: 2.5.1+dfsg-1build3 Maintainer: Ubuntu Developers Uploaders: Olivier Sallou , Steffen Moeller Homepage: https://www.tbi.univie.ac.at/RNA/ Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/vienna-rna Vcs-Git: https://salsa.debian.org/med-team/vienna-rna.git Build-Depends: debhelper-compat (= 13), dh-python, python3-dev, pkg-config, libtool, gettext, swig (>= 4.0.2), perl-doc, perl, graphviz, libdlib-dev, libgsl-dev, liblapack-dev, libmpfr-dev, libsvm-dev, xxd, texlive-latex-extra, help2man, gengetopt, cthreadpool-dev, ghostscript, doxygen, texinfo Package-List: librna-perl deb non-free/perl optional arch=any python3-rna deb non-free/python optional arch=any vienna-rna deb non-free/science optional arch=any Checksums-Sha1: 3a4f05befe16b0cfbd319e122311cb9ff2fcaadb 20223836 vienna-rna_2.5.1+dfsg.orig.tar.xz 9a860c2d2f58cfc04613d867b70dbb1745f598c1 11888 vienna-rna_2.5.1+dfsg-1build3.debian.tar.xz Checksums-Sha256: 00aa22ba147d35bb545207edc07de6c43e16dd2f0f52b82369c89cd85d3a0f8d 20223836 vienna-rna_2.5.1+dfsg.orig.tar.xz ef1a8536bcdcce5fd99876eccc536bad64f73fdc831179ac47aceaafa2f84d88 11888 vienna-rna_2.5.1+dfsg-1build3.debian.tar.xz Files: dd4c0c5a93f0b168ae26c4315651d618 20223836 vienna-rna_2.5.1+dfsg.orig.tar.xz bc9d4a94be77772c22408e14c88866b2 11888 vienna-rna_2.5.1+dfsg-1build3.debian.tar.xz Autobuild: yes Original-Maintainer: Debian Med Packaging Team -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEoIn7Nqr72tWswTJQafeQFxohCYQFAmYKRPYACgkQafeQFxoh CYScPxAAh7snwYGCkSiUZG42pOEoRsIeNmpZoFrYIoHFiGLwQFGRpvMsSlhRYhcF 6wR/lizx3Mhw2l6O4A6yOX5SdZ+S+l7bxZZUHVYUsOtY1t1oYBC4H1RQUS0fqzQG v6HUXw22OsgIgwPVbPW4Po8rF1SfRq6LpUuAPYetJ+YI6niaUffdUq31iFOHjp1S fFGO8EHU97vIFmw647FRsuqfx4aRTF2OuUEI1vhzcCTIlPedJpMWIA8HXJVk50z8 bm36neVferfNn0DdZfgsJDUa5wauY9w2cIQkQrpzg2LQLe2b+tijZEnvEKstTlH0 4CYjAXYzyE9tSswl4Q4qNLdcjVX/ULnZbXlNHjp+mUrWelblRO4mSXYsJwBkRQMU lYuqpUu09xFscqRQ508votiQpJ7n+6nmfhDF7ppM+hIcE55xf0hKuaKE2EjSOc+m 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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-27999132 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-27999132 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-27999132 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- Command: dpkg-buildpackage --sanitize-env -us -uc -mLaunchpad Build Daemon -B -rfakeroot dpkg-buildpackage: info: source package vienna-rna dpkg-buildpackage: info: source version 2.5.1+dfsg-1build3 dpkg-buildpackage: info: source distribution noble dpkg-source --before-build . dpkg-buildpackage: info: host architecture riscv64 debian/rules clean dh clean --with python3 debian/rules override_dh_auto_clean make[1]: Entering directory '/<>' dh_auto_clean rm -f doc/RNAlib* rm -f doc/*.db rm -f interfaces/Perl/Makefile.perl.old rm -f interfaces/Python/install.record rm -rf doc/html rm -rf doc/latex rm -rf src/cthreadpool #find . \( -type f -a \( -name config.status -o -name config.sub -o -name config.guess \) \) -delete find src/ViennaRNA -name "*.hex" -delete find . -name "*eps-converted-to.pdf" -delete rm -f src/bin/RNAfold_cmdl.[ch] rm -f aclocal.m4 src/Kinfold/aclocal.m4 grep -rl "DO NOT MODIFY THIS FILE! It was generated by help2man" man | xargs -r rm -f grep -lri "DO NOT EDIT THIS FILE." src | grep -v debian | xargs -r rm grep -lri "File autogenerated by gengetopt" src | grep -v debian | xargs -r rm grep -lri "Generated from configure.ac" . | grep -v debian | xargs -r rm grep -lri "generated by GNU Gengetopt" . | grep -v debian | xargs -r rm grep -lri "DO NOT MODIFY THIS FILE" man | grep -v debian | xargs -r rm grep -lri "made by GNU Bison" src | grep -v debian | xargs -r rm grep -lri "produced by makeinfo version" man | grep -v debian | xargs -r rm #rm -f src/Kinfold/INSTALL src/RNAforester/INSTALL src/RNAlocmin/RNAlocmin # removal of self-added symbolic links rm -rf src/cthreadpool/ find . -name Makefile.in -delete #rm -f config/ar-lib config/compile config/depcomp config/install-sh config/ltmain.sh config/missing config/test-driver config/texinfo.tex rm -f configure rm -f m4/libtool.m4 rm -f src/{RNAforester,RNAlocmin,Kinfold,Kinwalker}/{compile,depcomp,install-sh,missing,aclocal.m4,ylwrap} rm -f src/{Kinwalker,RNAforester}/{aclocal.m4,ylwrap,install-sh rm -f src/Kinfold/config.guess src/Kinfold/config.sub src/Kinfold/configure rm -f src/Kinwalker/configure rm -f src/RNAforester/configure src/RNAforester/g2-0.72/configure rm -f src/RNAlocmin/config.guess src/RNAlocmin/config.sub src/RNAlocmin/configure rm -f config/ltmain.sh src/Kinfold/INSTALL src/RNAforester/INSTALL # removing self-created man pages find man/ -name "*.1" -delete make[1]: Leaving directory '/<>' dh_clean debian/rules binary-arch dh binary-arch --with python3 dh_update_autotools_config -a dh_autoreconf -a configure.ac:17: installing './compile' configure.ac:28: installing './config.guess' configure.ac:28: installing './config.sub' configure.ac:11: installing './install-sh' configure.ac:11: installing './missing' Makefile.am: installing './depcomp' configure.ac:14: installing './compile' configure.ac:7: installing './install-sh' configure.ac:7: installing './missing' Makefile.am: installing './INSTALL' src/Makefile.am: installing './depcomp' configure.ac: installing './ylwrap' configure.ac:14: installing './compile' configure.ac:4: installing './install-sh' configure.ac:4: installing './missing' Makefile.am: installing './depcomp' configure.ac:11: installing './compile' configure.ac:19: installing './config.guess' configure.ac:19: installing './config.sub' configure.ac:14: installing './install-sh' configure.ac:14: installing './missing' Makefile.am: installing './depcomp' libtoolize: putting auxiliary files in AC_CONFIG_AUX_DIR, 'config'. libtoolize: copying file 'config/ltmain.sh' libtoolize: putting macros in AC_CONFIG_MACRO_DIRS, 'm4'. libtoolize: copying file 'm4/libtool.m4' libtoolize: copying file 'm4/ltoptions.m4' libtoolize: copying file 'm4/ltsugar.m4' libtoolize: copying file 'm4/ltversion.m4' libtoolize: copying file 'm4/lt~obsolete.m4' configure.ac:39: warning: The macro `AC_PROG_CC_C99' is obsolete. configure.ac:39: You should run autoupdate. ./lib/autoconf/c.m4:1659: AC_PROG_CC_C99 is expanded from... configure.ac:39: the top level configure.ac:48: installing 'config/ar-lib' configure.ac:15: installing 'config/compile' configure.ac:32: installing 'config/config.guess' configure.ac:32: installing 'config/config.sub' configure.ac:21: installing 'config/install-sh' configure.ac:21: installing 'config/missing' configure.ac:82: installing 'config/tap-driver.sh' interfaces/Perl/Makefile.am: installing 'config/depcomp' man/Makefile.am:5: installing 'config/texinfo.tex' debian/rules override_dh_auto_configure make[1]: Entering directory '/<>' CFLAGS="-I/usr/include/json-c/ -I/usr/include/libsvm/" \ CXXFLAGS="-I/usr/include/json-c/ -I/usr/include/libsvm/" \ dh_auto_configure -- \ --with-cluster \ --without-python2 \ --with-python \ --without-forester \ --without-doc \ --without-tutorial ./configure --build=riscv64-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/riscv64-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --with-cluster --without-python2 --with-python --without-forester --without-doc --without-tutorial checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C... yes checking whether gcc accepts -g... yes checking for gcc option to enable C11 features... none needed checking whether gcc understands -c and -o together... yes checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for wchar.h... yes checking for minix/config.h... no checking whether it is safe to define __EXTENSIONS__... yes checking whether _XOPEN_SOURCE should be defined... no checking whether make supports nested variables... yes checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a race-free mkdir -p... /usr/bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports the include directive... yes (GNU style) checking whether UID '2001' is supported by ustar format... yes checking whether GID '2501' is supported by ustar format... yes checking how to create a ustar tar archive... gnutar checking dependency style of gcc... none checking if malloc debugging is wanted... no checking build system type... riscv64-unknown-linux-gnu checking host system type... riscv64-unknown-linux-gnu checking for g++... g++ checking whether the compiler supports GNU C++... yes checking whether g++ accepts -g... yes checking for g++ option to enable C++11 features... none needed checking dependency style of g++... none checking how to run the C++ preprocessor... g++ -E checking for gcc... (cached) gcc checking whether the compiler supports GNU C... (cached) yes checking whether gcc accepts -g... (cached) yes checking for gcc option to enable C11 features... (cached) none needed checking whether gcc understands -c and -o together... (cached) yes checking how to run the C preprocessor... gcc -E checking for ar... ar checking the archiver (ar) interface... ar checking whether make sets $(MAKE)... (cached) yes checking for grep that handles long lines and -e... /usr/bin/grep checking for a sed that does not truncate output... /usr/bin/sed checking for gawk... (cached) mawk checking whether ln -s works... yes checking how to print strings... printf checking for a sed that does not truncate output... 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BSD nm checking the maximum length of command line arguments... 1572864 checking how to convert riscv64-unknown-linux-gnu file names to riscv64-unknown-linux-gnu format... func_convert_file_noop checking how to convert riscv64-unknown-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for file... file checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from gcc object... ok checking for sysroot... no checking for a working dd... /usr/bin/dd checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1 checking for mt... no checking if : is a manifest tool... no checking for dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes checking how to run the C++ preprocessor... g++ -E checking for ld used by g++... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes checking for g++ option to produce PIC... -fPIC -DPIC checking if g++ PIC flag -fPIC -DPIC works... yes checking if g++ static flag -static works... yes checking if g++ supports -c -o file.o... yes checking if g++ supports -c -o file.o... (cached) yes checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking for exp in -lm... yes ./configure: line 19143: #include: command not found checking for egrep... (cached) /usr/bin/grep -E checking for _Bool... yes checking for stdbool.h that conforms to C99... yes checking for malloc.h... yes checking for float.h... yes checking for limits.h... yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for strings.h... (cached) yes checking for unistd.h... (cached) yes checking for math.h... yes checking for stdarg.h... yes checking for GNU libc compatible malloc... yes checking for GNU libc compatible realloc... yes checking for working strtod... yes checking for floor... yes checking for strdup... yes checking for strstr... yes checking for strchr... yes checking for strrchr... yes checking for strstr... (cached) yes checking for strtol... yes checking for strtoul... yes checking for pow... yes checking for rint... yes checking for sqrt... yes checking for erand48... yes checking for memset... yes checking for memmove... yes checking for erand48... (cached) yes checking for asprintf... yes checking for vasprintf... yes checking for an ANSI C-conforming const... yes checking for size_t... yes checking for inline... inline checking for pdflatex... /usr/bin/pdflatex checking for bibtex... /usr/bin/bibtex checking for makeindex... /usr/bin/makeindex checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking for C compiler vendor... gnu checking for perl... /usr/bin/perl checking whether C compiler accepts -fno-strict-aliasing... yes checking whether C++ compiler accepts -fno-strict-aliasing... yes checking whether the linker accepts -fno-strict-aliasing... yes checking whether the C compiler allows unnamed unions of unnamed structs... yes checking whether the C++ compiler allows unnamed unions of unnamed structs... yes checking whether C compiler accepts -flto... yes checking whether C++ compiler accepts -flto... yes checking whether C compiler accepts -ffat-lto-objects... yes checking whether C++ compiler accepts -ffat-lto-objects... yes configure: WARNING: Trying to re-set ar/ranlib/nm to compiler specific wrappers checking for gcc-ar... gcc-ar checking for gcc-ranlib... gcc-ranlib checking for gcc-nm... gcc-nm checking whether the linker supports Link time Optimization (LTO)... yes checking for ./src/libsvm-3.25/svm.cpp... no checking for ./src/libsvm-3.25/svm.h... no checking for ./src/json/json.c... no checking for ./src/json/json.h... no checking for cblas_dgemm in -lgslcblas... yes checking for gsl_blas_dgemm in -lgsl... yes checking for OpenMP flag of C compiler... -fopenmp checking for OpenMP flag of C++ compiler... -fopenmp checking whether gcc is Clang... no checking whether pthreads work with "-pthread" and "-lpthread"... yes checking for joinable pthread attribute... PTHREAD_CREATE_JOINABLE checking whether more special flags are required for pthreads... no checking for PTHREAD_PRIO_INHERIT... yes checking compiler support for AVX 512 instructions... no checking compiler support for SSE 4.1 instructions... no checking whether C compiler accepts -ftree-vectorize... yes checking for mpfr.h... yes checking whether we can compile programs with mpfr support... yes checking for ./src/ViennaRNA/plotting/naview/naview.c... yes checking for ./src/ViennaRNA/plotting/naview/naview.h... yes checking for ./interfaces/Makefile.am... yes checking for swig... /usr/bin/swig checking SWIG version... 4.2.0 checking for SWIG library... /usr/share/swig4.0 checking for ./interfaces/Perl/Makefile.am... yes checking for /usr/bin/perl... (cached) /usr/bin/perl checking for Perl prefix... /usr checking for Perl siteprefix... /usr/local checking for Perl vendorprefix... /usr checking for Perl extension include path... /usr/lib/riscv64-linux-gnu/perl/5.38/CORE checking for Perl extension target directory... /usr/local/lib/riscv64-linux-gnu/perl/5.38.2 checking for architecture dependent Perl extension site target directory... /usr/local/lib/riscv64-linux-gnu/perl/5.38.2 checking for architecture dependent Perl extension vendor target directory... /usr/lib/riscv64-linux-gnu/perl5/5.38 checking for architecture independent Perl extension site target directory... /usr/local/share/perl/5.38.2 checking for architecture independent Perl extension vendor target directory... /usr/share/perl5 checking for Perl extensions C preprocessor flags... -D_REENTRANT -D_GNU_SOURCE -DDEBIAN -fwrapv -fno-strict-aliasing -pipe -I/usr/local/include checking for Perl extensions linker flags... -shared -L/usr/local/lib -fstack-protector-strong checking for Perl dynamic library extension... .so checking for ./interfaces/Python/Makefile.am... yes checking for python3... /usr/bin/python3 checking for Python3 include path... /usr/include/python3.12 checking for /usr/include/python3.12/Python.h... yes checking for Python3 ldflags... checking for Python3 extension linker... riscv64-linux-gnu-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-Bsymbolic-functions -Wl,-z,relro checking for directory to install Python3 scripts in... ${prefix}/lib/python3.12/site-packages checking for directory to install architecture dependent python3 things in... ${exec_prefix}/lib/python3.12/site-packages checking for Python3 module extension... .so checking for Python3 tag for cached compiled scripts... cpython-312 checking for Python3 extension of cached and optimized bytecode... cpython-312.opt-1.pyc checking for doxygen... /usr/bin/doxygen checking for dot... /usr/bin/dot checking for egrep... /usr/bin/egrep checking for perl... /usr/bin/perl checking for htlatex... no checking for LaTeX package(s) babel fancyhdr geometry hyperref inputenc lastpage xcolor... yes checking for check >= 0.9.4... no configure: WARNING: check not found -- will not build C-library Unit tests checking for diff... /usr/bin/diff checking for xxd... /usr/bin/xxd checking for gengetopt... /usr/bin/gengetopt checking for help2man... /usr/bin/help2man checking whether g++ supports C++11 features with -std=c++11... yes checking for ./src/Kinfold/Makefile.am... yes checking for ./src/Cluster/Makefile.am... yes checking for ./src/RNAlocmin/Makefile.am... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating packaging/macosx/Makefile config.status: creating packaging/macosx/Distribution.xml config.status: creating packaging/macosx/resources/welcome.txt config.status: creating src/ViennaRNA/plotting/naview/Makefile config.status: creating interfaces/Perl/Makefile config.status: creating interfaces/Perl/version.i config.status: creating interfaces/Python/Makefile config.status: creating interfaces/Python/version.i config.status: creating tests/Makefile config.status: creating tests/RNApath.py config.status: creating tests/RNAHelpers.pm config.status: creating tests/test-env.sh config.status: creating src/ViennaRNA/static/templates_postscript.h config.status: creating src/ViennaRNA/static/templates_svg.h config.status: creating src/ViennaRNA/static/energy_parameter_sets.h config.status: creating src/Cluster/Makefile config.status: creating src/ViennaRNA/vrna_config.h config.status: creating misc/Makefile config.status: creating interfaces/Makefile config.status: creating Makefile config.status: creating RNAlib2.pc config.status: creating src/Utils/Makefile config.status: creating src/bin/Makefile config.status: creating src/Makefile config.status: creating src/ViennaRNA/Makefile config.status: creating src/ViennaRNA/static/Makefile config.status: creating man/Makefile config.status: creating doc/Makefile config.status: creating doc/CLA/Makefile config.status: creating RNA-Tutorial/Makefile config.status: creating man/cmdlopt.sh config.status: creating examples/Makefile config.status: creating packaging/viennarna.spec config.status: creating packaging/PKGBUILD config.status: creating packaging/win_installer_archlinux_i686.nsi config.status: creating packaging/win_installer_archlinux_x86_64.nsi config.status: creating packaging/win_installer_fedora_i686.nsi config.status: creating packaging/win_installer_fedora_x86_64.nsi config.status: creating config.h config.status: executing depfiles commands config.status: executing libtool commands === configuring in src/Kinfold (/<>/src/Kinfold) configure: running /bin/bash ./configure --disable-option-checking '--prefix=/usr' '--build=riscv64-linux-gnu' '--includedir=${prefix}/include' '--mandir=${prefix}/share/man' '--infodir=${prefix}/share/info' '--sysconfdir=/etc' '--localstatedir=/var' '--disable-silent-rules' '--libdir=${prefix}/lib/riscv64-linux-gnu' '--runstatedir=/run' '--disable-maintainer-mode' '--disable-dependency-tracking' '--with-cluster' '--without-python2' '--with-python' '--without-forester' '--without-doc' '--without-tutorial' 'build_alias=riscv64-linux-gnu' 'CFLAGS=-I/usr/include/json-c/ -I/usr/include/libsvm/' 'LDFLAGS=-Wl,-Bsymbolic-functions -Wl,-z,relro' 'CPPFLAGS=-Wdate-time -D_FORTIFY_SOURCE=3' 'CXXFLAGS=-I/usr/include/json-c/ -I/usr/include/libsvm/' 'CC=gcc' 'CXX=g++' 'AR=gcc-ar' 'RANLIB=gcc-ranlib' 'NM=gcc-nm' 'VRNA_CFLAGS=-I$(top_srcdir)/../../src/ViennaRNA -I$(top_srcdir)/../../src -DVRNA_WITH_NAVIEW_LAYOUT' 'VRNA_LIBS=-fno-strict-aliasing -flto -L$(top_builddir)/../../src/ViennaRNA -lRNA -fopenmp -lgsl -lgslcblas -lpthread -lmpfr -lgmp' --cache-file=/dev/null --srcdir=. checking whether make supports nested variables... yes checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a race-free mkdir -p... /usr/bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking if malloc debugging is wanted... no checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C... yes checking whether gcc accepts -g... yes checking for gcc option to enable C11 features... none needed checking whether gcc understands -c and -o together... yes checking whether make supports the include directive... yes (GNU style) checking dependency style of gcc... none checking build system type... riscv64-unknown-linux-gnu checking host system type... riscv64-unknown-linux-gnu checking for strdup... yes checking for memset... yes checking for strchr... yes checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking for RNAlib2 >= 2.2.0... yes checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes ./configure: line 4958: #include: command not found checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for strings.h... (cached) yes checking for unistd.h... (cached) yes checking for exp in -lm... yes checking for an ANSI C-conforming const... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Example/Makefile config.status: creating Makefile config.status: creating config.h config.status: executing depfiles commands === configuring in src/RNAlocmin (/<>/src/RNAlocmin) configure: running /bin/bash ./configure --disable-option-checking '--prefix=/usr' '--build=riscv64-linux-gnu' '--includedir=${prefix}/include' '--mandir=${prefix}/share/man' '--infodir=${prefix}/share/info' '--sysconfdir=/etc' '--localstatedir=/var' '--disable-silent-rules' '--libdir=${prefix}/lib/riscv64-linux-gnu' '--runstatedir=/run' '--disable-maintainer-mode' '--disable-dependency-tracking' '--with-cluster' '--without-python2' '--with-python' '--without-forester' '--without-doc' '--without-tutorial' 'build_alias=riscv64-linux-gnu' 'CFLAGS=-I/usr/include/json-c/ -I/usr/include/libsvm/' 'LDFLAGS=-Wl,-Bsymbolic-functions -Wl,-z,relro' 'CPPFLAGS=-Wdate-time -D_FORTIFY_SOURCE=3' 'CXXFLAGS=-I/usr/include/json-c/ -I/usr/include/libsvm/' 'CC=gcc' 'CXX=g++' 'AR=gcc-ar' 'RANLIB=gcc-ranlib' 'NM=gcc-nm' 'VRNA_CFLAGS=-I$(top_srcdir)/../../src/ViennaRNA -I$(top_srcdir)/../../src -DVRNA_WITH_NAVIEW_LAYOUT' 'VRNA_LIBS=-fno-strict-aliasing -flto -L$(top_builddir)/../../src/ViennaRNA -lRNA -fopenmp -lgsl -lgslcblas -lpthread -lmpfr -lgmp' --cache-file=/dev/null --srcdir=. checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C... yes checking whether gcc accepts -g... yes checking for gcc option to enable C11 features... none needed checking whether gcc understands -c and -o together... yes checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for wchar.h... yes checking for minix/config.h... no checking whether it is safe to define __EXTENSIONS__... yes checking whether _XOPEN_SOURCE should be defined... no checking whether make supports nested variables... yes checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a race-free mkdir -p... /usr/bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports the include directive... yes (GNU style) checking dependency style of gcc... none checking build system type... riscv64-unknown-linux-gnu checking host system type... riscv64-unknown-linux-gnu checking whether the compiler supports GNU C++... yes checking whether g++ accepts -g... yes checking for g++ option to enable C++11 features... none needed checking dependency style of g++... none checking how to run the C++ preprocessor... g++ -E checking for gcc... (cached) gcc checking whether the compiler supports GNU C... (cached) yes checking whether gcc accepts -g... (cached) yes checking for gcc option to enable C11 features... (cached) none needed checking whether gcc understands -c and -o together... (cached) yes checking how to run the C preprocessor... gcc -E checking whether g++ supports C++11 features by default... yes checking for strchr... yes checking for strdup... yes checking for strtol... yes checking for limits.h... yes checking for _Bool... yes checking for stdbool.h that conforms to C99... yes checking for inline... inline checking for GNU libc compatible malloc... yes checking for GNU libc compatible realloc... yes checking for working strtod... yes checking for size_t... yes checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking for RNAlib2... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating config.h config.status: executing depfiles commands configure: ====================================== ViennaRNA Package 2.5.1 ====================================== Successfully configured with the following options: Sub Packages ------------ * Kinfold : yes * RNAforester : no * Analyse{Dists,Seqs} : yes * RNAlocmin : yes * Kinwalker : no Extra Libraries --------------- * Support Vector Machine : no * GNU Scientific Library : yes * GNU MPFR : yes * JSON : no Features -------- * Use hash for NR Sampling : no * C11 features : yes * TTY colors : yes * Float Precision(PF} : no * Deprecation Warnings : no Optimizations ------------- * Auto Vectorization : yes * Explicit SIMD Extension : yes * Link Time Optimization : yes * POSIX Threads : yes * OpenMP : yes Scripting Language Interfaces ----------------------------- * Perl 5 : yes * Python 3.x : yes * Python 2.x : no Documentation ------------- * Reference Manual (PDF) : no * Reference Manual (HTML) : no * Tutorial (PDF) : no * Tutorial (HTML) : no * CLA (PDF) : yes Unit Tests ---------- * Executable Programs : yes * C-Library : no * Perl 5 Interface : yes * Python 3.x Interface : yes * Python 2.x Interface : no MacOS X ------- * Universal Binary : no * Installer : no * SDK : no Install Directories ------------------- * Executables : /usr/bin * Libraries : /usr/lib/riscv64-linux-gnu * Header files : /usr/include * Extra Data : /usr/share * Man pages : /usr/share/man * Documentation : Not to be installed (HTML) : (PDF) : * Perl5 Interface : (binaries) : /usr/lib/riscv64-linux-gnu/perl/5.38.2 (scripts) : /usr/share/perl/5.38.2 * Python 3.x Interface : (binaries) : /usr/lib/python3.12/site-packages (scripts) : /usr/lib/python3.12/site-packages * Python 2.x Interface : Not to be installed (binaries) : (scripts) : You can run 'make', 'make check', and 'make install' now! if [ -r man/help2manWrapper.sh ] \ ; then chmod +x man/help2manWrapper.sh \ ; fi make[1]: Leaving directory '/<>' debian/rules override_dh_auto_build make[1]: Entering directory '/<>' if [ ! -d src/cthreadpool ]; then \ mkdir -p src/cthreadpool && \ cd src/cthreadpool && \ ln -s /usr/include/cthreadpool/thpool.h . && \ ln -s /usr/share/cthreadpool/thpool.c . ; \ fi dh_auto_build make -j4 make[2]: Entering directory '/<>' make all-recursive make[3]: Entering directory '/<>' Making all in src make[4]: Entering directory '/<>/src' Making all in ViennaRNA make[5]: Entering directory '/<>/src/ViennaRNA' Making all in static make[6]: Entering directory '/<>/src/ViennaRNA/static' /usr/bin/xxd -i < postscript/structure_plot_macro_base.ps > postscript/structure_plot_macro_base.hex && echo ',0x00' >> postscript/structure_plot_macro_base.hex /usr/bin/xxd -i < postscript/structure_plot_macro_extras.ps > postscript/structure_plot_macro_extras.hex && echo ',0x00' >> postscript/structure_plot_macro_extras.hex /usr/bin/xxd -i < postscript/dot_plot_macro_base.ps > postscript/dot_plot_macro_base.hex && echo ',0x00' >> postscript/dot_plot_macro_base.hex /usr/bin/xxd -i < postscript/dot_plot_macro_turn.ps > postscript/dot_plot_macro_turn.hex && echo ',0x00' >> postscript/dot_plot_macro_turn.hex /usr/bin/xxd -i < postscript/dot_plot_macro_sd.ps > postscript/dot_plot_macro_sd.hex && echo ',0x00' >> postscript/dot_plot_macro_sd.hex /usr/bin/xxd -i < postscript/dot_plot_macro_ud.ps > postscript/dot_plot_macro_ud.hex && echo ',0x00' >> postscript/dot_plot_macro_ud.hex /usr/bin/xxd -i < postscript/dot_plot_macro_sc_motifs.ps > postscript/dot_plot_macro_sc_motifs.hex && echo ',0x00' >> postscript/dot_plot_macro_sc_motifs.hex /usr/bin/xxd -i < postscript/dot_plot_macro_linear_data.ps > postscript/dot_plot_macro_linear_data.hex && echo ',0x00' >> postscript/dot_plot_macro_linear_data.hex /usr/bin/xxd -i < postscript/aln_macro_base.ps > postscript/aln_macro_base.hex && echo ',0x00' >> postscript/aln_macro_base.hex /usr/bin/xxd -i < svg/structure_plot_header.svg > svg/structure_plot_header.hex && echo ',0x00' >> svg/structure_plot_header.hex /usr/bin/xxd -i < svg/structure_plot_footer.svg > svg/structure_plot_footer.hex && echo ',0x00' >> svg/structure_plot_footer.hex /usr/bin/mkdir -p misc && /usr/bin/xxd -i < ../../../misc/dna_mathews1999.par > misc/dna_mathews1999.hex && echo ',0x00' >> misc/dna_mathews1999.hex /usr/bin/mkdir -p misc && /usr/bin/xxd -i < ../../../misc/dna_mathews2004.par > misc/dna_mathews2004.hex && echo ',0x00' >> misc/dna_mathews2004.hex /usr/bin/mkdir -p misc && /usr/bin/xxd -i < ../../../misc/rna_andronescu2007.par > misc/rna_andronescu2007.hex && echo ',0x00' >> misc/rna_andronescu2007.hex /usr/bin/mkdir -p misc && /usr/bin/xxd -i < ../../../misc/rna_langdon2018.par > misc/rna_langdon2018.hex && echo ',0x00' >> misc/rna_langdon2018.hex /usr/bin/mkdir -p misc && /usr/bin/xxd -i < ../../../misc/rna_misc_special_hairpins.par > misc/rna_misc_special_hairpins.hex && echo ',0x00' >> misc/rna_misc_special_hairpins.hex /usr/bin/mkdir -p misc && /usr/bin/xxd -i < ../../../misc/rna_turner1999.par > misc/rna_turner1999.hex && echo ',0x00' >> misc/rna_turner1999.hex /usr/bin/mkdir -p misc && /usr/bin/xxd -i < ../../../misc/rna_turner2004.par > misc/rna_turner2004.hex && echo ',0x00' >> misc/rna_turner2004.hex make all-am make[7]: Entering directory '/<>/src/ViennaRNA/static' make[7]: Nothing to be done for 'all-am'. make[7]: Leaving directory '/<>/src/ViennaRNA/static' make[6]: Leaving directory '/<>/src/ViennaRNA/static' Making all in plotting/naview make[6]: Entering directory '/<>/src/ViennaRNA/plotting/naview' /bin/bash ../../../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../../../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o naview.lo naview.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c naview.c -fPIC -DPIC -o .libs/naview.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c naview.c -fPIC -DPIC -o naview.o >/dev/null 2>&1 /bin/bash ../../../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o libRNA_naview.la naview.lo -lgsl -lgslcblas -lm libtool: link: gcc-ar cr .libs/libRNA_naview.a .libs/naview.o libtool: link: gcc-ranlib .libs/libRNA_naview.a libtool: link: ( cd ".libs" && rm -f "libRNA_naview.la" && ln -s "../libRNA_naview.la" "libRNA_naview.la" ) make[6]: Leaving directory '/<>/src/ViennaRNA/plotting/naview' make[6]: Entering directory '/<>/src/ViennaRNA' /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o fold_compound.lo fold_compound.c /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o dist_vars.lo dist_vars.c /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o part_func.lo part_func.c /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o part_func_wrappers.lo part_func_wrappers.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c dist_vars.c -fPIC -DPIC -o .libs/dist_vars.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c fold_compound.c -fPIC -DPIC -o .libs/fold_compound.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c part_func.c -fPIC -DPIC -o .libs/part_func.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c part_func_wrappers.c -fPIC -DPIC -o .libs/part_func_wrappers.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c dist_vars.c -fPIC -DPIC -o dist_vars.o >/dev/null 2>&1 /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o pf_fold.lo pf_fold.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c part_func_wrappers.c -fPIC -DPIC -o part_func_wrappers.o >/dev/null 2>&1 /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o pf_multifold.lo pf_multifold.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c pf_fold.c -fPIC -DPIC -o .libs/pf_fold.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c fold_compound.c -fPIC -DPIC -o fold_compound.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c part_func.c -fPIC -DPIC -o part_func.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c pf_multifold.c -fPIC -DPIC -o .libs/pf_multifold.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c pf_fold.c -fPIC -DPIC -o pf_fold.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c pf_multifold.c -fPIC -DPIC -o pf_multifold.o >/dev/null 2>&1 /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o treedist.lo treedist.c /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o inverse.lo inverse.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c treedist.c -fPIC -DPIC -o .libs/treedist.o /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o ProfileDist.lo ProfileDist.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c inverse.c -fPIC -DPIC -o .libs/inverse.o /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAstruct.lo RNAstruct.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c ProfileDist.c -fPIC -DPIC -o .libs/ProfileDist.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c treedist.c -fPIC -DPIC -o treedist.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c RNAstruct.c -fPIC -DPIC -o .libs/RNAstruct.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c inverse.c -fPIC -DPIC -o inverse.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c ProfileDist.c -fPIC -DPIC -o ProfileDist.o >/dev/null 2>&1 /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o mfe.lo mfe.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c RNAstruct.c -fPIC -DPIC -o RNAstruct.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c mfe.c -fPIC -DPIC -o .libs/mfe.o /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o mfe_window.lo mfe_window.c /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o mfe_wrappers.lo mfe_wrappers.c /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o mfe_window_wrappers.lo mfe_window_wrappers.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c mfe_window.c -fPIC -DPIC -o .libs/mfe_window.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c mfe_wrappers.c -fPIC -DPIC -o .libs/mfe_wrappers.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c mfe_window_wrappers.c -fPIC -DPIC -o .libs/mfe_window_wrappers.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c mfe_wrappers.c -fPIC -DPIC -o mfe_wrappers.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c mfe_window_wrappers.c -fPIC -DPIC -o mfe_window_wrappers.o >/dev/null 2>&1 /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o fold.lo fold.c /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o stringdist.lo stringdist.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c mfe_window.c -fPIC -DPIC -o mfe_window.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c fold.c -fPIC -DPIC -o .libs/fold.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c stringdist.c -fPIC -DPIC -o .libs/stringdist.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c mfe.c -fPIC -DPIC -o mfe.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c stringdist.c -fPIC -DPIC -o stringdist.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c fold.c -fPIC -DPIC -o fold.o >/dev/null 2>&1 /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o subopt.lo subopt.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c subopt.c -fPIC -DPIC -o .libs/subopt.o /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o subopt_zuker.lo subopt_zuker.c /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o Lfold.lo Lfold.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c subopt_zuker.c -fPIC -DPIC -o .libs/subopt_zuker.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c Lfold.c -fPIC -DPIC -o .libs/Lfold.o /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o cofold.lo cofold.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c Lfold.c -fPIC -DPIC -o Lfold.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c cofold.c -fPIC -DPIC -o .libs/cofold.o /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o part_func_co.lo part_func_co.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c subopt_zuker.c -fPIC -DPIC -o subopt_zuker.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time 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-o .libs/duplex.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c subopt.c -fPIC -DPIC -o subopt.o >/dev/null 2>&1 /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o alifold.lo alifold.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c ProfileAln.c -fPIC -DPIC -o ProfileAln.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT 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-DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o ribo.lo ribo.c /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o MEA.lo MEA.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c ribo.c -fPIC -DPIC -o .libs/ribo.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread 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-Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o 2Dpfold.lo 2Dpfold.c /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o plex_functions.lo plex_functions.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c mm.c -fPIC -DPIC -o .libs/mm.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread 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-DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c plex_functions.c -fPIC -DPIC -o plex_functions.o >/dev/null 2>&1 /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o ali_plex.lo ali_plex.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c ali_plex.c -fPIC -DPIC -o .libs/ali_plex.o /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o c_plex.lo c_plex.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c 2Dfold.c -fPIC -DPIC -o 2Dfold.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c 2Dpfold.c -fPIC -DPIC -o 2Dpfold.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread 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-D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c unstructured_domains.c -fPIC -DPIC -o .libs/unstructured_domains.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c grammar.c -fPIC -DPIC -o .libs/grammar.o /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o heat_capacity.lo heat_capacity.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp 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>/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c constraints/SHAPE.c -fPIC -DPIC -o constraints/.libs/SHAPE.o /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o constraints/hard.lo constraints/hard.c /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o constraints/soft.lo constraints/soft.c libtool: compile: gcc 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libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c plotting/alignments.c -fPIC -DPIC -o plotting/alignments.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c plotting/layouts.c -fPIC -DPIC -o plotting/layouts.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c plotting/probabilities.c -fPIC -DPIC -o plotting/probabilities.o >/dev/null 2>&1 /bin/bash ../../libtool 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-DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c plotting/RNApuzzler/RNApuzzler.c -fPIC -DPIC -o plotting/RNApuzzler/.libs/RNApuzzler.o /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o plotting/RNApuzzler/RNAturtle.lo plotting/RNApuzzler/RNAturtle.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c plotting/RNApuzzler/RNAturtle.c -fPIC -DPIC -o plotting/RNApuzzler/.libs/RNAturtle.o libtool: compile: gcc 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loops/.libs/hairpin_pf.o /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o loops/internal.lo loops/internal.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c loops/internal.c -fPIC -DPIC -o loops/.libs/internal.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c loops/hairpin_pf.c -fPIC -DPIC -o loops/hairpin_pf.o >/dev/null 2>&1 /bin/bash ../../libtool --tag=CC 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-ffat-lto-objects -fopenmp -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o libRNA_concentrations.la libRNA_concentrations_la-concentrations.lo libRNA_concentrations_la-wrap_dlib.lo -lgsl -lgslcblas -lm libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c landscape/neighbor.c -fPIC -DPIC -o landscape/neighbor.o >/dev/null 2>&1 libtool: link: gcc-ar cr .libs/libRNA_special_const.a .libs/special_const.o /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o libRNA_constraints.la constraints/constraints.lo constraints/SHAPE.lo constraints/hard.lo constraints/soft.lo constraints/ligand.lo -lgsl -lgslcblas -lm libtool: link: gcc-ranlib .libs/libRNA_special_const.a libtool: link: ( cd ".libs" && rm -f "libRNA_special_const.la" && ln -s "../libRNA_special_const.la" "libRNA_special_const.la" ) /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o libRNA_datastructures.la datastructures/basic_datastructures.lo datastructures/lists.lo datastructures/char_stream.lo datastructures/stream_output.lo datastructures/hash_tables.lo datastructures/heap.lo -lgsl -lgslcblas -lm libtool: link: gcc-ar cr .libs/libRNA_concentrations.a .libs/libRNA_concentrations_la-concentrations.o .libs/libRNA_concentrations_la-wrap_dlib.o libtool: link: gcc-ranlib .libs/libRNA_concentrations.a /bin/bash ../../libtool --tag=CC 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plotting/probabilities.lo plotting/structures.lo plotting/plot_utils.lo plotting/RNApuzzler/RNApuzzler.lo plotting/RNApuzzler/RNAturtle.lo plotting/naview/libRNA_naview.la -lgsl -lgslcblas -lm libtool: link: gcc-ar cr .libs/libRNA_constraints.a constraints/.libs/constraints.o constraints/.libs/SHAPE.o constraints/.libs/hard.o constraints/.libs/soft.o constraints/.libs/ligand.o libtool: link: gcc-ranlib .libs/libRNA_constraints.a libtool: link: ( cd ".libs" && rm -f "libRNA_constraints.la" && ln -s "../libRNA_constraints.la" "libRNA_constraints.la" ) /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o libRNA_params.la params/io.lo params/default.lo params/params.lo params/convert.lo -lgsl -lgslcblas -lm libtool: link: gcc-ar cr .libs/libRNA_datastructures.a datastructures/.libs/basic_datastructures.o datastructures/.libs/lists.o datastructures/.libs/char_stream.o datastructures/.libs/stream_output.o datastructures/.libs/hash_tables.o datastructures/.libs/heap.o libtool: link: gcc-ranlib .libs/libRNA_datastructures.a libtool: link: ( cd ".libs" && rm -f "libRNA_datastructures.la" && ln -s "../libRNA_datastructures.la" "libRNA_datastructures.la" ) /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o libRNA_loops.la loops/external.lo loops/external_bt.lo loops/external_pf.lo loops/hairpin.lo loops/hairpin_bt.lo loops/hairpin_pf.lo loops/internal.lo loops/internal_bt.lo loops/internal_pf.lo loops/multibranch.lo loops/multibranch_bt.lo loops/multibranch_pf.lo -lgsl -lgslcblas -lm libtool: link: (cd .libs/libRNA_plotting.lax/libRNA_naview.a && gcc-ar x "/<>/src/ViennaRNA/plotting/naview/.libs/libRNA_naview.a") libtool: link: gcc-ar cr .libs/libRNA_params.a params/.libs/io.o params/.libs/default.o params/.libs/params.o params/.libs/convert.o libtool: link: gcc-ar cr .libs/libRNA_utils.a utils/.libs/utils.o utils/.libs/string_utils.o utils/.libs/structure_utils.o utils/.libs/structure_tree.o utils/.libs/msa_utils.o utils/.libs/higher_order_functions.o utils/.libs/cpu.o utils/.libs/units.o io/.libs/io_utils.o io/.libs/file_formats.o io/.libs/file_formats_msa.o search/.libs/BoyerMoore.o .libs/commands.o .libs/combinatorics.o libtool: link: gcc-ranlib .libs/libRNA_utils.a libtool: link: gcc-ranlib .libs/libRNA_params.a libtool: link: ( cd ".libs" && rm -f "libRNA_utils.la" && ln -s "../libRNA_utils.la" "libRNA_utils.la" ) /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o libRNA_landscape.la move_set.lo landscape/move.lo landscape/findpath.lo landscape/neighbor.lo landscape/walk.lo -lgsl -lgslcblas -lm libtool: link: gcc-ar cr .libs/libRNA_plotting.a plotting/.libs/alignments.o plotting/.libs/layouts.o plotting/.libs/probabilities.o plotting/.libs/structures.o plotting/.libs/plot_utils.o plotting/RNApuzzler/.libs/RNApuzzler.o plotting/RNApuzzler/.libs/RNAturtle.o .libs/libRNA_plotting.lax/libRNA_naview.a/naview.o libtool: link: ( cd ".libs" && rm -f "libRNA_params.la" && ln -s "../libRNA_params.la" "libRNA_params.la" ) libtool: link: gcc-ranlib .libs/libRNA_plotting.a libtool: link: rm -fr .libs/libRNA_plotting.lax libtool: link: ( cd ".libs" && rm -f "libRNA_plotting.la" && ln -s "../libRNA_plotting.la" "libRNA_plotting.la" ) libtool: link: gcc-ar cr .libs/libRNA_loops.a loops/.libs/external.o loops/.libs/external_bt.o loops/.libs/external_pf.o loops/.libs/hairpin.o loops/.libs/hairpin_bt.o 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pf_fold.lo pf_multifold.lo treedist.lo inverse.lo ProfileDist.lo RNAstruct.lo mfe.lo mfe_window.lo mfe_wrappers.lo mfe_window_wrappers.lo fold.lo stringdist.lo subopt.lo subopt_zuker.lo Lfold.lo cofold.lo part_func_co.lo ProfileAln.lo duplex.lo alifold.lo alipfold.lo LPfold.lo part_func_up.lo ribo.lo MEA.lo mm.lo 2Dfold.lo 2Dpfold.lo plex_functions.lo ali_plex.lo c_plex.lo plex.lo snofold.lo snoop.lo gquad.lo perturbation_fold.lo centroid.lo model.lo dp_matrices.lo boltzmann_sampling.lo bs_wrappers.lo equilibrium_probs.lo alphabet.lo sequence.lo unstructured_domains.lo grammar.lo heat_capacity.lo libRNA_concentrations.la libRNA_constraints.la libRNA_datastructures.la libRNA_utils.la libRNA_plotting.la libRNA_params.la libRNA_eval.la libRNA_loops.la libRNA_landscape.la -lgsl -lgslcblas -lm libtool: link: (cd .libs/libRNA_conv.lax/libRNA_concentrations.a && gcc-ar x "/<>/src/ViennaRNA/./.libs/libRNA_concentrations.a") libtool: link: (cd .libs/libRNA_conv.lax/libRNA_constraints.a && gcc-ar x "/<>/src/ViennaRNA/./.libs/libRNA_constraints.a") libtool: link: (cd .libs/libRNA_conv.lax/libRNA_datastructures.a && gcc-ar x "/<>/src/ViennaRNA/./.libs/libRNA_datastructures.a") libtool: link: (cd .libs/libRNA_conv.lax/libRNA_utils.a && gcc-ar x "/<>/src/ViennaRNA/./.libs/libRNA_utils.a") libtool: link: (cd .libs/libRNA_conv.lax/libRNA_plotting.a && gcc-ar x "/<>/src/ViennaRNA/./.libs/libRNA_plotting.a") libtool: link: (cd .libs/libRNA_conv.lax/libRNA_params.a && gcc-ar x "/<>/src/ViennaRNA/./.libs/libRNA_params.a") libtool: link: (cd .libs/libRNA_conv.lax/libRNA_eval.a && gcc-ar x "/<>/src/ViennaRNA/./.libs/libRNA_eval.a") libtool: link: (cd .libs/libRNA_conv.lax/libRNA_loops.a && gcc-ar x "/<>/src/ViennaRNA/./.libs/libRNA_loops.a") libtool: link: (cd .libs/libRNA_conv.lax/libRNA_landscape.a && gcc-ar x "/<>/src/ViennaRNA/./.libs/libRNA_landscape.a") libtool: link: gcc-ar cr .libs/libRNA_conv.a .libs/fold_compound.o .libs/dist_vars.o .libs/part_func.o 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.libs/libRNA_conv.lax/libRNA_params.a/io.o .libs/libRNA_conv.lax/libRNA_params.a/params.o .libs/libRNA_conv.lax/libRNA_eval.a/eval.o .libs/libRNA_conv.lax/libRNA_eval.a/eval_covariance.o .libs/libRNA_conv.lax/libRNA_eval.a/eval_wrappers.o .libs/libRNA_conv.lax/libRNA_loops.a/external.o .libs/libRNA_conv.lax/libRNA_loops.a/external_bt.o .libs/libRNA_conv.lax/libRNA_loops.a/external_pf.o .libs/libRNA_conv.lax/libRNA_loops.a/hairpin.o .libs/libRNA_conv.lax/libRNA_loops.a/hairpin_bt.o .libs/libRNA_conv.lax/libRNA_loops.a/hairpin_pf.o .libs/libRNA_conv.lax/libRNA_loops.a/internal.o .libs/libRNA_conv.lax/libRNA_loops.a/internal_bt.o .libs/libRNA_conv.lax/libRNA_loops.a/internal_pf.o .libs/libRNA_conv.lax/libRNA_loops.a/multibranch.o .libs/libRNA_conv.lax/libRNA_loops.a/multibranch_bt.o .libs/libRNA_conv.lax/libRNA_loops.a/multibranch_pf.o .libs/libRNA_conv.lax/libRNA_landscape.a/findpath.o .libs/libRNA_conv.lax/libRNA_landscape.a/move.o .libs/libRNA_conv.lax/libRNA_landscape.a/move_set.o .libs/libRNA_conv.lax/libRNA_landscape.a/neighbor.o .libs/libRNA_conv.lax/libRNA_landscape.a/walk.o libtool: link: gcc-ranlib .libs/libRNA_conv.a libtool: link: rm -fr .libs/libRNA_conv.lax libtool: link: ( cd ".libs" && rm -f "libRNA_conv.la" && ln -s "../libRNA_conv.la" "libRNA_conv.la" ) /bin/bash ../../libtool --tag=CXX --mode=link g++ -std=c++11 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -avoid-version -static -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o libRNA.la -rpath /usr/lib/riscv64-linux-gnu libRNA_conv.la -lgsl -lgslcblas -lm libtool: link: (cd .libs/libRNA.lax/libRNA_conv.a && gcc-ar x "/<>/src/ViennaRNA/./.libs/libRNA_conv.a") libtool: link: gcc-ar cr .libs/libRNA.a .libs/libRNA.lax/libRNA_conv.a/2Dfold.o .libs/libRNA.lax/libRNA_conv.a/2Dpfold.o .libs/libRNA.lax/libRNA_conv.a/BoyerMoore.o .libs/libRNA.lax/libRNA_conv.a/LPfold.o .libs/libRNA.lax/libRNA_conv.a/Lfold.o .libs/libRNA.lax/libRNA_conv.a/MEA.o .libs/libRNA.lax/libRNA_conv.a/ProfileAln.o .libs/libRNA.lax/libRNA_conv.a/ProfileDist.o .libs/libRNA.lax/libRNA_conv.a/RNApuzzler.o .libs/libRNA.lax/libRNA_conv.a/RNAstruct.o .libs/libRNA.lax/libRNA_conv.a/RNAturtle.o .libs/libRNA.lax/libRNA_conv.a/SHAPE.o .libs/libRNA.lax/libRNA_conv.a/ali_plex.o .libs/libRNA.lax/libRNA_conv.a/alifold.o .libs/libRNA.lax/libRNA_conv.a/alignments.o .libs/libRNA.lax/libRNA_conv.a/alipfold.o .libs/libRNA.lax/libRNA_conv.a/alphabet.o .libs/libRNA.lax/libRNA_conv.a/basic_datastructures.o .libs/libRNA.lax/libRNA_conv.a/boltzmann_sampling.o .libs/libRNA.lax/libRNA_conv.a/bs_wrappers.o .libs/libRNA.lax/libRNA_conv.a/c_plex.o .libs/libRNA.lax/libRNA_conv.a/centroid.o .libs/libRNA.lax/libRNA_conv.a/char_stream.o .libs/libRNA.lax/libRNA_conv.a/cofold.o .libs/libRNA.lax/libRNA_conv.a/combinatorics.o .libs/libRNA.lax/libRNA_conv.a/commands.o .libs/libRNA.lax/libRNA_conv.a/constraints.o .libs/libRNA.lax/libRNA_conv.a/convert.o .libs/libRNA.lax/libRNA_conv.a/cpu.o .libs/libRNA.lax/libRNA_conv.a/default.o .libs/libRNA.lax/libRNA_conv.a/dist_vars.o .libs/libRNA.lax/libRNA_conv.a/dp_matrices.o .libs/libRNA.lax/libRNA_conv.a/duplex.o .libs/libRNA.lax/libRNA_conv.a/equilibrium_probs.o .libs/libRNA.lax/libRNA_conv.a/eval.o .libs/libRNA.lax/libRNA_conv.a/eval_covariance.o .libs/libRNA.lax/libRNA_conv.a/eval_wrappers.o .libs/libRNA.lax/libRNA_conv.a/external.o .libs/libRNA.lax/libRNA_conv.a/external_bt.o .libs/libRNA.lax/libRNA_conv.a/external_pf.o .libs/libRNA.lax/libRNA_conv.a/file_formats.o .libs/libRNA.lax/libRNA_conv.a/file_formats_msa.o .libs/libRNA.lax/libRNA_conv.a/findpath.o .libs/libRNA.lax/libRNA_conv.a/fold.o .libs/libRNA.lax/libRNA_conv.a/fold_compound.o .libs/libRNA.lax/libRNA_conv.a/gquad.o .libs/libRNA.lax/libRNA_conv.a/grammar.o .libs/libRNA.lax/libRNA_conv.a/hairpin.o .libs/libRNA.lax/libRNA_conv.a/hairpin_bt.o .libs/libRNA.lax/libRNA_conv.a/hairpin_pf.o .libs/libRNA.lax/libRNA_conv.a/hard.o .libs/libRNA.lax/libRNA_conv.a/hash_tables.o .libs/libRNA.lax/libRNA_conv.a/heap.o .libs/libRNA.lax/libRNA_conv.a/heat_capacity.o .libs/libRNA.lax/libRNA_conv.a/higher_order_functions.o .libs/libRNA.lax/libRNA_conv.a/internal.o .libs/libRNA.lax/libRNA_conv.a/internal_bt.o .libs/libRNA.lax/libRNA_conv.a/internal_pf.o .libs/libRNA.lax/libRNA_conv.a/inverse.o .libs/libRNA.lax/libRNA_conv.a/io.o .libs/libRNA.lax/libRNA_conv.a/io_utils.o .libs/libRNA.lax/libRNA_conv.a/layouts.o .libs/libRNA.lax/libRNA_conv.a/libRNA_concentrations_la-concentrations.o .libs/libRNA.lax/libRNA_conv.a/libRNA_concentrations_la-wrap_dlib.o .libs/libRNA.lax/libRNA_conv.a/ligand.o .libs/libRNA.lax/libRNA_conv.a/lists.o .libs/libRNA.lax/libRNA_conv.a/mfe.o .libs/libRNA.lax/libRNA_conv.a/mfe_window.o .libs/libRNA.lax/libRNA_conv.a/mfe_window_wrappers.o .libs/libRNA.lax/libRNA_conv.a/mfe_wrappers.o .libs/libRNA.lax/libRNA_conv.a/mm.o .libs/libRNA.lax/libRNA_conv.a/model.o .libs/libRNA.lax/libRNA_conv.a/move.o .libs/libRNA.lax/libRNA_conv.a/move_set.o .libs/libRNA.lax/libRNA_conv.a/msa_utils.o .libs/libRNA.lax/libRNA_conv.a/multibranch.o .libs/libRNA.lax/libRNA_conv.a/multibranch_bt.o .libs/libRNA.lax/libRNA_conv.a/multibranch_pf.o .libs/libRNA.lax/libRNA_conv.a/naview.o .libs/libRNA.lax/libRNA_conv.a/neighbor.o .libs/libRNA.lax/libRNA_conv.a/params.o .libs/libRNA.lax/libRNA_conv.a/part_func.o .libs/libRNA.lax/libRNA_conv.a/part_func_co.o .libs/libRNA.lax/libRNA_conv.a/part_func_up.o .libs/libRNA.lax/libRNA_conv.a/part_func_wrappers.o .libs/libRNA.lax/libRNA_conv.a/perturbation_fold.o .libs/libRNA.lax/libRNA_conv.a/pf_fold.o .libs/libRNA.lax/libRNA_conv.a/pf_multifold.o .libs/libRNA.lax/libRNA_conv.a/plex.o .libs/libRNA.lax/libRNA_conv.a/plex_functions.o .libs/libRNA.lax/libRNA_conv.a/plot_utils.o .libs/libRNA.lax/libRNA_conv.a/probabilities.o .libs/libRNA.lax/libRNA_conv.a/ribo.o .libs/libRNA.lax/libRNA_conv.a/sequence.o .libs/libRNA.lax/libRNA_conv.a/snofold.o .libs/libRNA.lax/libRNA_conv.a/snoop.o .libs/libRNA.lax/libRNA_conv.a/soft.o .libs/libRNA.lax/libRNA_conv.a/stream_output.o .libs/libRNA.lax/libRNA_conv.a/string_utils.o .libs/libRNA.lax/libRNA_conv.a/stringdist.o .libs/libRNA.lax/libRNA_conv.a/structure_tree.o .libs/libRNA.lax/libRNA_conv.a/structure_utils.o .libs/libRNA.lax/libRNA_conv.a/structures.o .libs/libRNA.lax/libRNA_conv.a/subopt.o .libs/libRNA.lax/libRNA_conv.a/subopt_zuker.o .libs/libRNA.lax/libRNA_conv.a/treedist.o .libs/libRNA.lax/libRNA_conv.a/units.o .libs/libRNA.lax/libRNA_conv.a/unstructured_domains.o .libs/libRNA.lax/libRNA_conv.a/utils.o .libs/libRNA.lax/libRNA_conv.a/walk.o libtool: link: gcc-ranlib .libs/libRNA.a libtool: link: rm -fr .libs/libRNA.lax libtool: link: ( cd ".libs" && rm -f "libRNA.la" && ln -s "../libRNA.la" "libRNA.la" ) ( \ /bin/bash ../../libtool --config > libtoolconfig.tmp && \ ( \. ./libtoolconfig.tmp; cp "$objdir/libRNA.a" ./ ) && \ rm -f libtoolconfig.tmp \ ) make[6]: Leaving directory '/<>/src/ViennaRNA' make[5]: Leaving directory '/<>/src/ViennaRNA' Making all in bin make[5]: Entering directory '/<>/src/bin' /usr/bin/gengetopt -i RNAfold.ggo gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAfold.o RNAfold.c /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o input_id_helpers.lo input_id_helpers.c /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o parallel_helpers.lo parallel_helpers.c /usr/bin/gengetopt -i RNAeval.ggo gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAeval.o RNAeval.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c input_id_helpers.c -fPIC -DPIC -o .libs/input_id_helpers.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c parallel_helpers.c -fPIC -DPIC -o .libs/parallel_helpers.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c input_id_helpers.c -fPIC -DPIC -o input_id_helpers.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c parallel_helpers.c -fPIC -DPIC -o parallel_helpers.o >/dev/null 2>&1 /usr/bin/gengetopt -i RNAheat.ggo gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAheat.o RNAheat.c /usr/bin/gengetopt -i RNApdist.ggo gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNApdist.o RNApdist.c /usr/bin/gengetopt -i RNAdistance.ggo gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAdistance.o RNAdistance.c /usr/bin/gengetopt -i RNAinverse.ggo gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAinverse.o RNAinverse.c /usr/bin/gengetopt -i RNAplot.ggo gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAplot.o RNAplot.c /usr/bin/gengetopt -i RNAsubopt.ggo gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAsubopt.o RNAsubopt.c /usr/bin/gengetopt -i RNALfold.ggo gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNALfold.o RNALfold.c /usr/bin/gengetopt -i RNAcofold.ggo gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAcofold.o RNAcofold.c /usr/bin/gengetopt -i RNApaln.ggo gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNApaln.o RNApaln.c /usr/bin/gengetopt -i RNAduplex.ggo gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAduplex.o RNAduplex.c /usr/bin/gengetopt -i RNAalifold.ggo gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAalifold.o RNAalifold.c /usr/bin/gengetopt -i RNAplfold.ggo gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAplfold.o RNAplfold.c /usr/bin/gengetopt -i RNAup.ggo gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAup.o RNAup.c /usr/bin/gengetopt -i RNAaliduplex.ggo gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAaliduplex.o RNAaliduplex.c /usr/bin/gengetopt -i RNALalifold.ggo gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNALalifold.o RNALalifold.c /usr/bin/gengetopt -i RNA2Dfold.ggo gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNA2Dfold.o RNA2Dfold.c /usr/bin/gengetopt -i RNAparconv.ggo gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAparconv.o RNAparconv.c /usr/bin/gengetopt -i RNAPKplex.ggo gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAPKplex.o RNAPKplex.c /usr/bin/gengetopt -i RNAplex.ggo gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAplex.o RNAplex.c /usr/bin/gengetopt -i RNAsnoop.ggo gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAsnoop.o RNAsnoop.c /usr/bin/gengetopt -i RNApvmin.ggo gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNApvmin.o RNApvmin.c /usr/bin/gengetopt -i RNAdos.ggo gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAdos.o RNAdos.c RNAsnoop.c: In function ‘redraw_output’: RNAsnoop.c:1357:25: warning: ‘%d’ directive writing between 1 and 10 bytes into a region of size 9 [-Wformat-overflow=] 1357 | sprintf(str, "%d", count); | ^~ RNAsnoop.c:1357:24: note: directive argument in the range [1, 2147483647] 1357 | sprintf(str, "%d", count); | ^~~~ RNAsnoop.c:1357:11: note: ‘sprintf’ output between 2 and 11 bytes into a destination of size 9 1357 | sprintf(str, "%d", count); | ^~~~~~~~~~~~~~~~~~~~~~~~~ /usr/bin/gengetopt -i RNAmultifold.ggo gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAmultifold.o RNAmultifold.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAfold_cmdl.o RNAfold_cmdl.c /bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o ../cthreadpool/thpool.lo ../cthreadpool/thpool.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAeval_cmdl.o RNAeval_cmdl.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c ../cthreadpool/thpool.c -fPIC -DPIC -o ../cthreadpool/.libs/thpool.o gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAheat_cmdl.o RNAheat_cmdl.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNApdist_cmdl.o RNApdist_cmdl.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c ../cthreadpool/thpool.c -fPIC -DPIC -o ../cthreadpool/thpool.o >/dev/null 2>&1 gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAdistance_cmdl.o RNAdistance_cmdl.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAinverse_cmdl.o RNAinverse_cmdl.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAplot_cmdl.o RNAplot_cmdl.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAsubopt_cmdl.o RNAsubopt_cmdl.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNALfold_cmdl.o RNALfold_cmdl.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAcofold_cmdl.o RNAcofold_cmdl.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNApaln_cmdl.o RNApaln_cmdl.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAduplex_cmdl.o RNAduplex_cmdl.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAalifold_cmdl.o RNAalifold_cmdl.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAplfold_cmdl.o RNAplfold_cmdl.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAup_cmdl.o RNAup_cmdl.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAaliduplex_cmdl.o RNAaliduplex_cmdl.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNALalifold_cmdl.o RNALalifold_cmdl.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNA2Dfold_cmdl.o RNA2Dfold_cmdl.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAparconv_cmdl.o RNAparconv_cmdl.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAPKplex_cmdl.o RNAPKplex_cmdl.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAplex_cmdl.o RNAplex_cmdl.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAsnoop_cmdl.o RNAsnoop_cmdl.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNApvmin_cmdl.o RNApvmin_cmdl.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAdos_cmdl.o RNAdos_cmdl.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../../src/cthreadpool -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAmultifold_cmdl.o RNAmultifold_cmdl.c /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -avoid-version -static -flto -Wl,-Bsymbolic-functions -Wl,-z,relro -o libhelpers.la input_id_helpers.lo parallel_helpers.lo ../cthreadpool/thpool.lo -lgsl -lgslcblas -lm libtool: link: gcc-ar cr .libs/libhelpers.a input_id_helpers.o parallel_helpers.o ../cthreadpool/thpool.o libtool: link: gcc-ranlib .libs/libhelpers.a libtool: link: ( cd ".libs" && rm -f "libhelpers.la" && ln -s "../libhelpers.la" "libhelpers.la" ) /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o RNAeval RNAeval_cmdl.o RNAeval.o ../../src/ViennaRNA/libRNA_conv.la libhelpers.la -lmpfr -lgmp -lgsl -lgslcblas -lm /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o RNAfold RNAfold_cmdl.o RNAfold.o ../../src/ViennaRNA/libRNA_conv.la libhelpers.la -lmpfr -lgmp -lgsl -lgslcblas -lm /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o RNAheat RNAheat_cmdl.o RNAheat.o ../../src/ViennaRNA/libRNA_conv.la libhelpers.la -lmpfr -lgmp -lgsl -lgslcblas -lm /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o RNApdist RNApdist_cmdl.o RNApdist.o ../../src/ViennaRNA/libRNA_conv.la libhelpers.la -lmpfr -lgmp -lgsl -lgslcblas -lm libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o RNAeval RNAeval_cmdl.o RNAeval.o ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread ./.libs/libhelpers.a -lmpfr -lgmp -lgsl -lgslcblas -lm -pthread -fopenmp libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o RNAheat RNAheat_cmdl.o RNAheat.o ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread ./.libs/libhelpers.a -lmpfr -lgmp -lgsl -lgslcblas -lm -pthread -fopenmp libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o RNAfold RNAfold_cmdl.o RNAfold.o ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread ./.libs/libhelpers.a -lmpfr -lgmp -lgsl -lgslcblas -lm -pthread -fopenmp libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o RNApdist RNApdist_cmdl.o RNApdist.o ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread ./.libs/libhelpers.a -lmpfr -lgmp -lgsl -lgslcblas -lm -pthread -fopenmp /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o RNAdistance RNAdistance_cmdl.o RNAdistance.o ../../src/ViennaRNA/libRNA_conv.la libhelpers.la -lmpfr -lgmp -lgsl -lgslcblas -lm libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o RNAdistance RNAdistance_cmdl.o RNAdistance.o ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread ./.libs/libhelpers.a -lmpfr -lgmp -lgsl -lgslcblas -lm -pthread -fopenmp /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o RNAinverse RNAinverse_cmdl.o RNAinverse.o ../../src/ViennaRNA/libRNA_conv.la libhelpers.la -lmpfr -lgmp -lgsl -lgslcblas -lm libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o RNAinverse RNAinverse_cmdl.o RNAinverse.o ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread ./.libs/libhelpers.a -lmpfr -lgmp -lgsl -lgslcblas -lm -pthread -fopenmp /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o RNAplot RNAplot_cmdl.o RNAplot.o ../../src/ViennaRNA/libRNA_conv.la libhelpers.la -lmpfr -lgmp -lgsl -lgslcblas -lm /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o RNAsubopt RNAsubopt_cmdl.o RNAsubopt.o ../../src/ViennaRNA/libRNA_conv.la libhelpers.la -lmpfr -lgmp -lgsl -lgslcblas -lm libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o RNAplot RNAplot_cmdl.o RNAplot.o ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread ./.libs/libhelpers.a -lmpfr -lgmp -lgsl -lgslcblas -lm -pthread -fopenmp libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o RNAsubopt RNAsubopt_cmdl.o RNAsubopt.o ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread ./.libs/libhelpers.a -lmpfr -lgmp -lgsl -lgslcblas -lm -pthread -fopenmp /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o RNALfold RNALfold_cmdl.o RNALfold.o ../../src/ViennaRNA/libRNA_conv.la libhelpers.la -lmpfr -lgmp -lgsl -lgslcblas -lm libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o RNALfold RNALfold_cmdl.o RNALfold.o ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread ./.libs/libhelpers.a -lmpfr -lgmp -lgsl -lgslcblas -lm -pthread -fopenmp /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o RNAcofold RNAcofold_cmdl.o RNAcofold.o ../../src/ViennaRNA/libRNA_conv.la libhelpers.la -lmpfr -lgmp -lgsl -lgslcblas -lm libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o RNAcofold RNAcofold_cmdl.o RNAcofold.o ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread ./.libs/libhelpers.a -lmpfr -lgmp -lgsl -lgslcblas -lm -pthread -fopenmp /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o RNApaln RNApaln_cmdl.o RNApaln.o ../../src/ViennaRNA/libRNA_conv.la libhelpers.la -lmpfr -lgmp -lgsl -lgslcblas -lm libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o RNApaln RNApaln_cmdl.o RNApaln.o ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread ./.libs/libhelpers.a -lmpfr -lgmp -lgsl -lgslcblas -lm -pthread -fopenmp /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o RNAduplex RNAduplex_cmdl.o RNAduplex.o ../../src/ViennaRNA/libRNA_conv.la libhelpers.la -lmpfr -lgmp -lgsl -lgslcblas -lm libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o RNAduplex RNAduplex_cmdl.o RNAduplex.o ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread ./.libs/libhelpers.a -lmpfr -lgmp -lgsl -lgslcblas -lm -pthread -fopenmp /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o RNAalifold RNAalifold_cmdl.o RNAalifold.o ../../src/ViennaRNA/libRNA_conv.la libhelpers.la -lmpfr -lgmp -lgsl -lgslcblas -lm libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o RNAalifold RNAalifold_cmdl.o RNAalifold.o ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread ./.libs/libhelpers.a -lmpfr -lgmp -lgsl -lgslcblas -lm -pthread -fopenmp /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o RNAplfold RNAplfold_cmdl.o RNAplfold.o ../../src/ViennaRNA/libRNA_conv.la libhelpers.la -lmpfr -lgmp -lgsl -lgslcblas -lm /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o RNAup RNAup_cmdl.o RNAup.o ../../src/ViennaRNA/libRNA_conv.la libhelpers.la -lmpfr -lgmp -lgsl -lgslcblas -lm /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o RNAaliduplex RNAaliduplex_cmdl.o RNAaliduplex.o ../../src/ViennaRNA/libRNA_conv.la libhelpers.la -lmpfr -lgmp -lgsl -lgslcblas -lm libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o RNAplfold RNAplfold_cmdl.o RNAplfold.o ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread ./.libs/libhelpers.a -lmpfr -lgmp -lgsl -lgslcblas -lm -pthread -fopenmp libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o RNAup RNAup_cmdl.o RNAup.o ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread ./.libs/libhelpers.a -lmpfr -lgmp -lgsl -lgslcblas -lm -pthread -fopenmp libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o RNAaliduplex RNAaliduplex_cmdl.o RNAaliduplex.o ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread ./.libs/libhelpers.a -lmpfr -lgmp -lgsl -lgslcblas -lm -pthread -fopenmp /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o RNALalifold RNALalifold_cmdl.o RNALalifold.o ../../src/ViennaRNA/libRNA_conv.la libhelpers.la -lmpfr -lgmp -lgsl -lgslcblas -lm libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o RNALalifold RNALalifold_cmdl.o RNALalifold.o ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread ./.libs/libhelpers.a -lmpfr -lgmp -lgsl -lgslcblas -lm -pthread -fopenmp /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o RNA2Dfold RNA2Dfold_cmdl.o RNA2Dfold.o ../../src/ViennaRNA/libRNA_conv.la libhelpers.la -lmpfr -lgmp -lgsl -lgslcblas -lm libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o RNA2Dfold RNA2Dfold_cmdl.o RNA2Dfold.o ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread ./.libs/libhelpers.a -lmpfr -lgmp -lgsl -lgslcblas -lm -pthread -fopenmp /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o RNAparconv RNAparconv_cmdl.o RNAparconv.o ../../src/ViennaRNA/libRNA_conv.la libhelpers.la -lmpfr -lgmp -lgsl -lgslcblas -lm libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o RNAparconv RNAparconv_cmdl.o RNAparconv.o ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread ./.libs/libhelpers.a -lmpfr -lgmp -lgsl -lgslcblas -lm -pthread -fopenmp /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o RNAPKplex RNAPKplex_cmdl.o RNAPKplex.o ../../src/ViennaRNA/libRNA_conv.la libhelpers.la -lmpfr -lgmp -lgsl -lgslcblas -lm /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o RNAplex RNAplex_cmdl.o RNAplex.o ../../src/ViennaRNA/libRNA_conv.la libhelpers.la -lmpfr -lgmp -lgsl -lgslcblas -lm libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o RNAPKplex RNAPKplex_cmdl.o RNAPKplex.o ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread ./.libs/libhelpers.a -lmpfr -lgmp -lgsl -lgslcblas -lm -pthread -fopenmp libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o RNAplex RNAplex_cmdl.o RNAplex.o ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread ./.libs/libhelpers.a -lmpfr -lgmp -lgsl -lgslcblas -lm -pthread -fopenmp /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o RNAsnoop RNAsnoop_cmdl.o RNAsnoop.o ../../src/ViennaRNA/libRNA_conv.la libhelpers.la -lmpfr -lgmp -lgsl -lgslcblas -lm libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o RNAsnoop RNAsnoop_cmdl.o RNAsnoop.o ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread ./.libs/libhelpers.a -lmpfr -lgmp -lgsl -lgslcblas -lm -pthread -fopenmp /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o RNApvmin RNApvmin_cmdl.o RNApvmin.o ../../src/ViennaRNA/libRNA_conv.la libhelpers.la -lmpfr -lgmp -lgsl -lgslcblas -lm libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o RNApvmin RNApvmin_cmdl.o RNApvmin.o ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread ./.libs/libhelpers.a -lmpfr -lgmp -lgsl -lgslcblas -lm -pthread -fopenmp /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o RNAdos RNAdos_cmdl.o RNAdos.o ../../src/ViennaRNA/libRNA_conv.la libhelpers.la -lmpfr -lgmp -lgsl -lgslcblas -lm libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o RNAdos RNAdos_cmdl.o RNAdos.o ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread ./.libs/libhelpers.a -lmpfr -lgmp -lgsl -lgslcblas -lm -pthread -fopenmp /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o RNAmultifold RNAmultifold_cmdl.o RNAmultifold.o ../../src/ViennaRNA/libRNA_conv.la libhelpers.la -lmpfr -lgmp -lstdc++ -ldlib -llapack -lgsl -lgslcblas -lm libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o RNAmultifold RNAmultifold_cmdl.o RNAmultifold.o ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread ./.libs/libhelpers.a -lmpfr -lgmp -lstdc++ -ldlib -llapack -lgsl -lgslcblas -lm -pthread -fopenmp make[5]: Leaving directory '/<>/src/bin' Making all in Utils make[5]: Entering directory '/<>/src/Utils' gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o b2ct.o b2ct.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o popt.o popt.c gengetopt -i ct2db.ggo gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o ct2db.o ct2db.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o ct2db_cmdl.o ct2db_cmdl.c /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o popt popt.o ../../src/ViennaRNA/libRNA_conv.la -lm -lgsl -lgslcblas -lm /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o b2ct b2ct.o ../../src/ViennaRNA/libRNA_conv.la -lm -lgsl -lgslcblas -lm /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -Wl,-Bsymbolic-functions -Wl,-z,relro -o ct2db ct2db_cmdl.o ct2db.o ../../src/ViennaRNA/libRNA_conv.la -lm -lgsl -lgslcblas -lm libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o b2ct b2ct.o ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread -lgsl -lgslcblas -lm -pthread -fopenmp libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o popt popt.o ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread -lgsl -lgslcblas -lm -pthread -fopenmp libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o ct2db ct2db_cmdl.o ct2db.o ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread -lgsl -lgslcblas -lm -pthread -fopenmp make[5]: Leaving directory '/<>/src/Utils' Making all in Cluster make[5]: Entering directory '/<>/src/Cluster' gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../.. -I../.. -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o split.o split.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../.. -I../.. -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o distance_matrix.o distance_matrix.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../.. -I../.. -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o cluster.o cluster.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../.. -I../.. -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o treeplot.o treeplot.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../.. -I../.. -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o AD_main.o AD_main.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../.. -I../.. -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o statgeom.o statgeom.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../.. -I../.. -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o AS_main.o AS_main.c gcc -DHAVE_CONFIG_H -I. -I../.. -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -I../.. -I../.. -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o PS3D.o PS3D.c /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -ldlib -Wl,-Bsymbolic-functions -Wl,-z,relro -o AnalyseDists split.o distance_matrix.o cluster.o treeplot.o AD_main.o ../../src/ViennaRNA/libRNA_conv.la -lgsl -lgslcblas -lm /bin/bash ../../libtool --tag=CC --mode=link gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -pthread -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -lpthread -ldlib -Wl,-Bsymbolic-functions -Wl,-z,relro -o AnalyseSeqs statgeom.o distance_matrix.o cluster.o AS_main.o split.o treeplot.o PS3D.o ../../src/ViennaRNA/libRNA_conv.la -lgsl -lgslcblas -lm libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o AnalyseDists split.o distance_matrix.o cluster.o treeplot.o AD_main.o -ldlib ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread -lgsl -lgslcblas -lm -pthread -fopenmp libtool: link: gcc -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -ftree-vectorize -I/usr/include/json-c/ -I/usr/include/libsvm/ -fno-strict-aliasing -flto -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -o AnalyseSeqs statgeom.o distance_matrix.o cluster.o AS_main.o split.o treeplot.o PS3D.o -ldlib ../../src/ViennaRNA/.libs/libRNA_conv.a -lpthread -lgsl -lgslcblas -lm -pthread -fopenmp make[5]: Leaving directory '/<>/src/Cluster' make[5]: Entering directory '/<>/src' make[5]: Nothing to be done for 'all-am'. make[5]: Leaving directory '/<>/src' make[4]: Leaving directory '/<>/src' Making all in man make[4]: Entering directory '/<>/man' restore=: && backupdir=".am$$" && \ am__cwd=`pwd` && CDPATH="${ZSH_VERSION+.}:" && cd . && \ rm -rf $backupdir && mkdir $backupdir && \ if (/bin/bash '/<>/config/missing' makeinfo --version) >/dev/null 2>&1; then \ for f in RNAlib.info RNAlib.info-[0-9] RNAlib.info-[0-9][0-9] RNAlib.i[0-9] RNAlib.i[0-9][0-9]; do \ if test -f $f; then mv $f $backupdir; restore=mv; else :; fi; \ done; \ else :; fi && \ cd "$am__cwd"; \ if /bin/bash '/<>/config/missing' makeinfo -I . \ -o RNAlib.info RNAlib.texi; \ then \ rc=0; \ CDPATH="${ZSH_VERSION+.}:" && cd .; \ else \ rc=$?; \ CDPATH="${ZSH_VERSION+.}:" && cd . && \ $restore $backupdir/* `echo "./RNAlib.info" | sed 's|[^/]*$||'`; \ fi; \ rm -rf $backupdir; exit $rc ./help2manWrapper.sh \ "/usr/bin/help2man" ../src/bin/RNA2Dfold.ggo | perl -pe 's/\\e\\e/\\e/g' > RNA2Dfold.1 ./help2manWrapper.sh \ "/usr/bin/help2man" ../src/bin/RNAaliduplex.ggo | perl -pe 's/\\e\\e/\\e/g' > RNAaliduplex.1 ./help2manWrapper.sh \ "/usr/bin/help2man" ../src/bin/RNAalifold.ggo | perl -pe 's/\\e\\e/\\e/g' > RNAalifold.1 ./help2manWrapper.sh \ "/usr/bin/help2man" ../src/bin/RNAcofold.ggo | perl -pe 's/\\e\\e/\\e/g' > RNAcofold.1 ./help2manWrapper.sh \ "/usr/bin/help2man" ../src/bin/RNAduplex.ggo | perl -pe 's/\\e\\e/\\e/g' > RNAduplex.1 ./help2manWrapper.sh \ "/usr/bin/help2man" ../src/bin/RNAeval.ggo | perl -pe 's/\\e\\e/\\e/g' > RNAeval.1 ./help2manWrapper.sh \ "/usr/bin/help2man" ../src/bin/RNAfold.ggo | perl -pe 's/\\e\\e/\\e/g' > RNAfold.1 ./help2manWrapper.sh \ "/usr/bin/help2man" ../src/bin/RNAheat.ggo | perl -pe 's/\\e\\e/\\e/g' > RNAheat.1 ./help2manWrapper.sh \ "/usr/bin/help2man" ../src/bin/RNAinverse.ggo | perl -pe 's/\\e\\e/\\e/g' > RNAinverse.1 ./help2manWrapper.sh \ "/usr/bin/help2man" ../src/bin/RNALalifold.ggo | perl -pe 's/\\e\\e/\\e/g' > RNALalifold.1 ./help2manWrapper.sh \ "/usr/bin/help2man" ../src/bin/RNALfold.ggo | perl -pe 's/\\e\\e/\\e/g' > RNALfold.1 RNAlib.texi:803: warning: @noindent is useless inside of a paragraph ./help2manWrapper.sh \ "/usr/bin/help2man" ../src/bin/RNAmultifold.ggo | perl -pe 's/\\e\\e/\\e/g' > RNAmultifold.1 ./help2manWrapper.sh \ "/usr/bin/help2man" ../src/bin/RNApaln.ggo | perl -pe 's/\\e\\e/\\e/g' > RNApaln.1 ./help2manWrapper.sh \ "/usr/bin/help2man" ../src/bin/RNAparconv.ggo | perl -pe 's/\\e\\e/\\e/g' > RNAparconv.1 ./help2manWrapper.sh \ "/usr/bin/help2man" ../src/bin/RNAplfold.ggo | perl -pe 's/\\e\\e/\\e/g' > RNAplfold.1 ./help2manWrapper.sh \ "/usr/bin/help2man" ../src/bin/RNAplot.ggo | perl -pe 's/\\e\\e/\\e/g' > RNAplot.1 ./help2manWrapper.sh \ "/usr/bin/help2man" ../src/bin/RNApvmin.ggo | perl -pe 's/\\e\\e/\\e/g' > RNApvmin.1 ./help2manWrapper.sh \ "/usr/bin/help2man" ../src/bin/RNAsubopt.ggo | perl -pe 's/\\e\\e/\\e/g' > RNAsubopt.1 ./help2manWrapper.sh \ "/usr/bin/help2man" ../src/bin/RNAup.ggo | perl -pe 's/\\e\\e/\\e/g' > RNAup.1 ./help2manWrapper.sh \ "/usr/bin/help2man" ../src/bin/RNAPKplex.ggo | perl -pe 's/\\e\\e/\\e/g' > RNAPKplex.1 ./help2manWrapper.sh \ "/usr/bin/help2man" ../src/bin/RNAsnoop.ggo | perl -pe 's/\\e\\e/\\e/g' > RNAsnoop.1 ./help2manWrapper.sh \ "/usr/bin/help2man" ../src/bin/RNAplex.ggo | perl -pe 's/\\e\\e/\\e/g' > RNAplex.1 ./help2manWrapper.sh \ "/usr/bin/help2man" ../src/bin/RNAdistance.ggo | perl -pe 's/\\e\\e/\\e/g' > RNAdistance.1 ./help2manWrapper.sh \ "/usr/bin/help2man" ../src/bin/RNApdist.ggo | perl -pe 's/\\e\\e/\\e/g' > RNApdist.1 ./help2manWrapper.sh \ "/usr/bin/help2man" ../src/bin/RNAdos.ggo | perl -pe 's/\\e\\e/\\e/g' > RNAdos.1 /usr/bin/help2man \ -N \ --help-option=--detailed-help \ --opt-include=./include/ref_package.inc \ "./cmdlopt.sh ../src/Utils/ct2db" > ct2db.1 make[4]: Leaving directory '/<>/man' Making all in misc make[4]: Entering directory '/<>/misc' make[4]: Nothing to be done for 'all'. make[4]: Leaving directory '/<>/misc' Making all in doc make[4]: Entering directory '/<>/doc' Making all in CLA make[5]: Entering directory '/<>/doc/CLA' rm -f *.dvi *.idv *.aux *.toc *.idx *.ind *.ilg *.log *.out *.brf *.blg *.bbl CLA-*.pdf && \ /usr/bin/pdflatex -interaction=nonstopmode -halt-on-error CLA-Individual >/dev/null 2>&1 && \ /usr/bin/pdflatex -interaction=nonstopmode -halt-on-error CLA-Individual >/dev/null 2>&1 && \ /usr/bin/pdflatex -interaction=nonstopmode -halt-on-error CLA-Individual >/dev/null 2>&1 && \ mv CLA-Individual.pdf ViennaRNA-CLA-Individual.pdf ; rm -f *.dvi *.idv *.aux *.toc *.idx *.ind *.ilg *.log *.out *.brf *.blg *.bbl CLA-*.pdf && \ /usr/bin/pdflatex -interaction=nonstopmode -halt-on-error CLA-Entity >/dev/null 2>&1 && \ /usr/bin/pdflatex -interaction=nonstopmode -halt-on-error CLA-Entity >/dev/null 2>&1 && \ /usr/bin/pdflatex -interaction=nonstopmode -halt-on-error CLA-Entity >/dev/null 2>&1 && \ mv CLA-Entity.pdf ViennaRNA-CLA-Entity.pdf ; make[5]: Leaving directory '/<>/doc/CLA' make[5]: Entering directory '/<>/doc' make[5]: Nothing to be done for 'all-am'. make[5]: Leaving directory '/<>/doc' make[4]: Leaving directory '/<>/doc' Making all in RNA-Tutorial make[4]: Entering directory '/<>/RNA-Tutorial' make[4]: Nothing to be done for 'all'. make[4]: Leaving directory '/<>/RNA-Tutorial' Making all in interfaces make[4]: Entering directory '/<>/interfaces' Making all in Perl make[5]: Entering directory '/<>/interfaces/Perl' /usr/bin/swig \ -I../../src \ -I. \ -I. \ -DVRNA_WITH_NAVIEW_LAYOUT \ -perl5 \ -proxy \ -const \ -c++ \ -w509 \ -module RNA \ -o RNA_wrap.cpp \ ./../RNA.i /usr/bin/swig \ -I../../src \ -I. \ -I. \ -DVRNA_WITH_NAVIEW_LAYOUT \ -perl5 \ -proxy \ -const \ -c++ \ -w509 \ -module RNA \ -o RNA_wrap.cpp \ ./../RNA.i /bin/bash ../../libtool --tag=CXX --mode=compile g++ -std=c++11 -DHAVE_CONFIG_H -I. -I../.. -I/usr/lib/riscv64-linux-gnu/perl/5.38/CORE -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -pthread -Wno-unused-label -Wno-unused-variable -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNA_la-RNA_wrap.lo `test -f 'RNA_wrap.cpp' || echo './'`RNA_wrap.cpp libtool: compile: g++ -std=c++11 -DHAVE_CONFIG_H -I. -I../.. -I/usr/lib/riscv64-linux-gnu/perl/5.38/CORE -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -pthread -Wno-unused-label -Wno-unused-variable -I/usr/include/json-c/ -I/usr/include/libsvm/ -c RNA_wrap.cpp -fPIC -DPIC -o .libs/RNA_la-RNA_wrap.o libtool: compile: g++ -std=c++11 -DHAVE_CONFIG_H -I. -I../.. -I/usr/lib/riscv64-linux-gnu/perl/5.38/CORE -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -pthread -Wno-unused-label -Wno-unused-variable -I/usr/include/json-c/ -I/usr/include/libsvm/ -c RNA_wrap.cpp -fPIC -DPIC -o RNA_la-RNA_wrap.o >/dev/null 2>&1 /bin/bash ../../libtool --tag=CXX --mode=link g++ -std=c++11 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -pthread -Wno-unused-label -Wno-unused-variable -I/usr/include/json-c/ -I/usr/include/libsvm/ -Xcompiler -pthread -lpthread -avoid-version -module -shared -export-dynamic -shrext .so -Wl,-Bsymbolic-functions -Wl,-z,relro -o RNA.la -rpath /usr/lib/riscv64-linux-gnu/perl/5.38.2/auto/RNA RNA_la-RNA_wrap.lo -ldlib ../../src/ViennaRNA/libRNA_conv.la -lmpfr -lgmp -lgsl -lgslcblas -lm libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/riscv64-linux-gnu/13/crti.o /usr/lib/gcc/riscv64-linux-gnu/13/crtbeginS.o .libs/RNA_la-RNA_wrap.o -Wl,--whole-archive ../../src/ViennaRNA/.libs/libRNA_conv.a -Wl,--no-whole-archive -ldlib -lpthread -lmpfr -lgmp -lgsl -lgslcblas -L/usr/lib/gcc/riscv64-linux-gnu/13 -L/lib/riscv64-linux-gnu -L/usr/lib/riscv64-linux-gnu -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/riscv64-linux-gnu/13/crtendS.o /usr/lib/gcc/riscv64-linux-gnu/13/crtn.o -flto -fopenmp -pthread -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -fopenmp -pthread -Wl,-soname -Wl,RNA.so -o .libs/RNA.so libtool: link: ( cd ".libs" && rm -f "RNA.la" && ln -s "../RNA.la" "RNA.la" ) ( /usr/bin/mkdir -p auto/RNA ) && \ ( \ /bin/bash ../../libtool --config > libtoolconfig.tmp && \ ( . ./libtoolconfig.tmp; cp "$objdir/RNA.so" auto/RNA ) && \ rm -f libtoolconfig.tmp \ ) make[5]: Leaving directory '/<>/interfaces/Perl' Making all in Python make[5]: Entering directory '/<>/interfaces/Python' /usr/bin/swig \ -I../../src \ -I. \ -I. \ -DPY3 \ -DVRNA_WITH_NAVIEW_LAYOUT \ -python \ -py3 \ -c++ \ -keyword \ -w511,509 \ -o RNA_wrap.cpp \ ./../RNA.i Deprecated command line option: -py3. Ignored, this option is no longer supported. /bin/bash ../../libtool --tag=CXX --mode=compile g++ -std=c++11 -DHAVE_CONFIG_H -I. -I../.. -I/usr/include/python3.12 -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -pthread -Wno-unused-label -Wno-unused-variable -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o _RNA_la-RNA_wrap.lo `test -f 'RNA_wrap.cpp' || echo './'`RNA_wrap.cpp ( test -d RNA || /usr/bin/mkdir -p RNA ) && \ cp `test -f RNA.py || echo './'`RNA.py RNA/__init__.py libtool: compile: g++ -std=c++11 -DHAVE_CONFIG_H -I. -I../.. -I/usr/include/python3.12 -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -pthread -Wno-unused-label -Wno-unused-variable -I/usr/include/json-c/ -I/usr/include/libsvm/ -c RNA_wrap.cpp -fPIC -DPIC -o .libs/_RNA_la-RNA_wrap.o libtool: compile: g++ -std=c++11 -DHAVE_CONFIG_H -I. -I../.. -I/usr/include/python3.12 -DVRNA_WITH_NAVIEW_LAYOUT -I../../src -Wdate-time -D_FORTIFY_SOURCE=3 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -pthread -Wno-unused-label -Wno-unused-variable -I/usr/include/json-c/ -I/usr/include/libsvm/ -c RNA_wrap.cpp -fPIC -DPIC -o _RNA_la-RNA_wrap.o >/dev/null 2>&1 /bin/bash ../../libtool --tag=CXX --mode=link g++ -std=c++11 -fno-strict-aliasing -flto -ffat-lto-objects -fopenmp -pthread -Wno-unused-label -Wno-unused-variable -I/usr/include/json-c/ -I/usr/include/libsvm/ -Xcompiler -pthread -lpthread -avoid-version -module -shared -export-dynamic -shrext .so -Wl,-Bsymbolic-functions -Wl,-z,relro -o _RNA.la -rpath /usr/lib/python3.12/site-packages/RNA _RNA_la-RNA_wrap.lo -ldlib ../../src/ViennaRNA/libRNA_conv.la -lmpfr -lgmp -lgsl -lgslcblas -lm libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/riscv64-linux-gnu/13/crti.o /usr/lib/gcc/riscv64-linux-gnu/13/crtbeginS.o .libs/_RNA_la-RNA_wrap.o -Wl,--whole-archive ../../src/ViennaRNA/.libs/libRNA_conv.a -Wl,--no-whole-archive -ldlib -lpthread -lmpfr -lgmp -lgsl -lgslcblas -L/usr/lib/gcc/riscv64-linux-gnu/13 -L/lib/riscv64-linux-gnu -L/usr/lib/riscv64-linux-gnu -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/riscv64-linux-gnu/13/crtendS.o /usr/lib/gcc/riscv64-linux-gnu/13/crtn.o -flto -fopenmp -pthread -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -fopenmp -pthread -Wl,-soname -Wl,_RNA.so -o .libs/_RNA.so libtool: link: ( cd ".libs" && rm -f "_RNA.la" && ln -s "../_RNA.la" "_RNA.la" ) ( test -d RNA || /usr/bin/mkdir -p RNA ) && \ ( /bin/bash ../../libtool --config > libtoolconfig.tmp ) && \ ( . ./libtoolconfig.tmp; cp $objdir/_RNA.so RNA ) && \ rm -f libtoolconfig.tmp ( PYTHONPATH="RNA:$PYTHONPATH" /usr/bin/python3 -c "import _RNA" ; \ PYTHONPATH=".:$PYTHONPATH" /usr/bin/python3 -c "import RNA" ) ( PYTHONPATH="RNA:$PYTHONPATH" /usr/bin/python3 -O -c "import _RNA" ; \ PYTHONPATH=".:$PYTHONPATH" /usr/bin/python3 -O -c "import RNA" ) make[5]: Leaving directory '/<>/interfaces/Python' make[5]: Entering directory '/<>/interfaces' make[5]: Nothing to be done for 'all-am'. make[5]: Leaving directory '/<>/interfaces' make[4]: Leaving directory '/<>/interfaces' Making all in src/Kinfold make[4]: Entering directory '/<>/src/Kinfold' make all-recursive make[5]: Entering directory '/<>/src/Kinfold' Making all in Example make[6]: Entering directory '/<>/src/Kinfold/Example' make[6]: Nothing to be done for 'all'. make[6]: Leaving directory '/<>/src/Kinfold/Example' make[6]: Entering directory '/<>/src/Kinfold' gcc -DHAVE_CONFIG_H -I. -I./src -Wdate-time -D_FORTIFY_SOURCE=3 -I./../../src/ViennaRNA -I./../../src -DVRNA_WITH_NAVIEW_LAYOUT -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o baum.o baum.c gcc -DHAVE_CONFIG_H -I. -I./src -Wdate-time -D_FORTIFY_SOURCE=3 -I./../../src/ViennaRNA -I./../../src -DVRNA_WITH_NAVIEW_LAYOUT -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o cache.o cache.c gengetopt -i kinfold.ggo gcc -DHAVE_CONFIG_H -I. -I./src -Wdate-time -D_FORTIFY_SOURCE=3 -I./../../src/ViennaRNA -I./../../src -DVRNA_WITH_NAVIEW_LAYOUT -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o main.o main.c gcc -DHAVE_CONFIG_H -I. -I./src -Wdate-time -D_FORTIFY_SOURCE=3 -I./../../src/ViennaRNA -I./../../src -DVRNA_WITH_NAVIEW_LAYOUT -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o nachbar.o nachbar.c gcc -DHAVE_CONFIG_H -I. -I./src -Wdate-time -D_FORTIFY_SOURCE=3 -I./../../src/ViennaRNA -I./../../src -DVRNA_WITH_NAVIEW_LAYOUT -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o cmdline.o cmdline.c nachbar.c: In function ‘sel_nb’: nachbar.c:318:30: warning: format ‘%d’ expects argument of type ‘int’, but argument 3 has type ‘size_t’ {aka ‘long unsigned int’} [-Wformat=] 318 | sprintf(format, "%%-%ds %%6.2f %%10.3f", strlen(GAV.farbe_full)+1); | ~^ ~~~~~~~~~~~~~~~~~~~~~~~~ | | | | int size_t {aka long unsigned int} | %ld gcc -DHAVE_CONFIG_H -I. -I./src -Wdate-time -D_FORTIFY_SOURCE=3 -I./../../src/ViennaRNA -I./../../src -DVRNA_WITH_NAVIEW_LAYOUT -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o globals.o globals.c globals.c: In function ‘process_options_gg’: globals.c:358:41: warning: format ‘%g’ expects argument of type ‘float *’, but argument 3 has type ‘double *’ [-Wformat=] 358 | if (sscanf(args_info.pbounds_arg, "%g=%g=%g", | ~^ | | | float * | %lg 359 | &GAV.phi_bounds[0], | ~~~~~~~~~~~~~~~~~~ | | | double * globals.c:358:44: warning: format ‘%g’ expects argument of type ‘float *’, but argument 4 has type ‘double *’ [-Wformat=] 358 | if (sscanf(args_info.pbounds_arg, "%g=%g=%g", | ~^ | | | float * | %lg 359 | &GAV.phi_bounds[0], 360 | &GAV.phi_bounds[1], | ~~~~~~~~~~~~~~~~~~ | | | double * globals.c:358:47: warning: format ‘%g’ expects argument of type ‘float *’, but argument 5 has type ‘double *’ [-Wformat=] 358 | if (sscanf(args_info.pbounds_arg, "%g=%g=%g", | ~^ | | | float * | %lg ...... 361 | &GAV.phi_bounds[2]) == 0) | ~~~~~~~~~~~~~~~~~~ | | | double * globals.c: In function ‘process_options’: globals.c:448:32: warning: format ‘%g’ expects argument of type ‘float *’, but argument 3 has type ‘double *’ [-Wformat=] 448 | if (sscanf(optarg, "%g=%g=%g", | ~^ | | | float * | %lg 449 | &GAV.phi_bounds[0], | ~~~~~~~~~~~~~~~~~~ | | | double * globals.c:448:35: warning: format ‘%g’ expects argument of type ‘float *’, but argument 4 has type ‘double *’ [-Wformat=] 448 | if (sscanf(optarg, "%g=%g=%g", | ~^ | | | float * | %lg 449 | &GAV.phi_bounds[0], 450 | &GAV.phi_bounds[1], | ~~~~~~~~~~~~~~~~~~ | | | double * globals.c:448:38: warning: format ‘%g’ expects argument of type ‘float *’, but argument 5 has type ‘double *’ [-Wformat=] 448 | if (sscanf(optarg, "%g=%g=%g", | ~^ | | | float * | %lg ...... 451 | &GAV.phi_bounds[2]) == 0) | ~~~~~~~~~~~~~~~~~~ | | | double * gcc -I./../../src/ViennaRNA -I./../../src -DVRNA_WITH_NAVIEW_LAYOUT -I/usr/include/json-c/ -I/usr/include/libsvm/ -Wl,-Bsymbolic-functions -Wl,-z,relro -o Kinfold baum.o cache.o globals.o main.o nachbar.o cmdline.o -fno-strict-aliasing -flto -L./../../src/ViennaRNA -lRNA -fopenmp -lgsl -lgslcblas -lpthread -lmpfr -lgmp -lm make[6]: Leaving directory '/<>/src/Kinfold' make[5]: Leaving directory '/<>/src/Kinfold' make[4]: Leaving directory '/<>/src/Kinfold' Making all in src/RNAlocmin make[4]: Entering directory '/<>/src/RNAlocmin' make all-am make[5]: Entering directory '/<>/src/RNAlocmin' gengetopt -i RNAlocmin.ggo g++ -DHAVE_CONFIG_H -I. -I./../../src/ViennaRNA -I./../../src -DVRNA_WITH_NAVIEW_LAYOUT -Wno-write-strings -Wdate-time -D_FORTIFY_SOURCE=3 -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o barrier_tree.o barrier_tree.cpp g++ -DHAVE_CONFIG_H -I. -I./../../src/ViennaRNA -I./../../src -DVRNA_WITH_NAVIEW_LAYOUT -Wno-write-strings -Wdate-time -D_FORTIFY_SOURCE=3 -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o findpath_pk.o findpath_pk.cpp g++ -DHAVE_CONFIG_H -I. -I./../../src/ViennaRNA -I./../../src -DVRNA_WITH_NAVIEW_LAYOUT -Wno-write-strings -Wdate-time -D_FORTIFY_SOURCE=3 -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o flood.o flood.cpp g++ -DHAVE_CONFIG_H -I. -I./../../src/ViennaRNA -I./../../src -DVRNA_WITH_NAVIEW_LAYOUT -Wno-write-strings -Wdate-time -D_FORTIFY_SOURCE=3 -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o globals.o globals.cpp In file included from flood.h:4, from flood.cpp:12: hash_util.h: In member function ‘size_t hash_fncts::operator()(const Structure&) const’: hash_util.h:82:19: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 82 | register short *k; /* the key */ | ^ hash_util.h:83:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 83 | register unsigned length; /* the length of the key */ | ^~~~~~ hash_util.h:84:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 84 | register unsigned initval=0; /* the previous hash, or an arbitrary value */ | ^~~~~~~ hash_util.h:85:21: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 85 | register unsigned a,b,c,len; | ^ hash_util.h:85:23: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 85 | register unsigned a,b,c,len; | ^ hash_util.h:85:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 85 | register unsigned a,b,c,len; | ^ hash_util.h:85:27: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 85 | register unsigned a,b,c,len; | ^~~ hash_util.h: In member function ‘size_t hash_fncts::operator()(const struct_en&) const’: hash_util.h:126:19: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 126 | register short *k; /* the key */ | ^ hash_util.h:127:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 127 | register unsigned length; /* the length of the key */ | ^~~~~~ hash_util.h:128:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 128 | register unsigned initval=0; /* the previous hash, or an arbitrary value */ | ^~~~~~~ hash_util.h:129:21: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 129 | register unsigned a,b,c,len; | ^ hash_util.h:129:23: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 129 | register unsigned a,b,c,len; | ^ hash_util.h:129:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 129 | register unsigned a,b,c,len; | ^ hash_util.h:129:27: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 129 | register unsigned a,b,c,len; | ^~~ hash_util.h: In member function ‘size_t hash_fncts::operator()(const Structure*) const’: hash_util.h:168:19: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 168 | register short *k; /* the key */ | ^ hash_util.h:169:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 169 | register unsigned length; /* the length of the key */ | ^~~~~~ hash_util.h:170:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 170 | register unsigned initval=0; /* the previous hash, or an arbitrary value */ | ^~~~~~~ hash_util.h:171:21: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 171 | register unsigned a,b,c,len; | ^ hash_util.h:171:23: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 171 | register unsigned a,b,c,len; | ^ hash_util.h:171:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 171 | register unsigned a,b,c,len; | ^ hash_util.h:171:27: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 171 | register unsigned a,b,c,len; | ^~~ hash_util.h: In member function ‘size_t hash_fncts::operator()(const struct_en*) const’: hash_util.h:212:19: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 212 | register short *k; /* the key */ | ^ hash_util.h:213:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 213 | register unsigned length; /* the length of the key */ | ^~~~~~ hash_util.h:214:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 214 | register unsigned initval=0; /* the previous hash, or an arbitrary value */ | ^~~~~~~ hash_util.h:215:21: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 215 | register unsigned a,b,c,len; | ^ hash_util.h:215:23: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 215 | register unsigned a,b,c,len; | ^ hash_util.h:215:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 215 | register unsigned a,b,c,len; | ^ hash_util.h:215:27: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 215 | register unsigned a,b,c,len; | ^~~ g++ -DHAVE_CONFIG_H -I. -I./../../src/ViennaRNA -I./../../src -DVRNA_WITH_NAVIEW_LAYOUT -Wno-write-strings -Wdate-time -D_FORTIFY_SOURCE=3 -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o hash_util.o hash_util.cpp In file included from globals.h:10, from globals.cpp:15: hash_util.h: In member function ‘size_t hash_fncts::operator()(const Structure&) const’: hash_util.h:82:19: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 82 | register short *k; /* the key */ | ^ hash_util.h:83:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 83 | register unsigned length; /* the length of the key */ | ^~~~~~ hash_util.h:84:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 84 | register unsigned initval=0; /* the previous hash, or an arbitrary value */ | ^~~~~~~ hash_util.h:85:21: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 85 | register unsigned a,b,c,len; | ^ hash_util.h:85:23: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 85 | register unsigned a,b,c,len; | ^ hash_util.h:85:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 85 | register unsigned a,b,c,len; | ^ hash_util.h:85:27: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 85 | register unsigned a,b,c,len; | ^~~ hash_util.h: In member function ‘size_t hash_fncts::operator()(const struct_en&) const’: hash_util.h:126:19: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 126 | register short *k; /* the key */ | ^ hash_util.h:127:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 127 | register unsigned length; /* the length of the key */ | ^~~~~~ hash_util.h:128:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 128 | register unsigned initval=0; /* the previous hash, or an arbitrary value */ | ^~~~~~~ hash_util.h:129:21: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 129 | register unsigned a,b,c,len; | ^ hash_util.h:129:23: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 129 | register unsigned a,b,c,len; | ^ hash_util.h:129:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 129 | register unsigned a,b,c,len; | ^ hash_util.h:129:27: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 129 | register unsigned a,b,c,len; | ^~~ hash_util.h: In member function ‘size_t hash_fncts::operator()(const Structure*) const’: hash_util.h:168:19: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 168 | register short *k; /* the key */ | ^ hash_util.h:169:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 169 | register unsigned length; /* the length of the key */ | ^~~~~~ hash_util.h:170:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 170 | register unsigned initval=0; /* the previous hash, or an arbitrary value */ | ^~~~~~~ hash_util.h:171:21: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 171 | register unsigned a,b,c,len; | ^ hash_util.h:171:23: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 171 | register unsigned a,b,c,len; | ^ hash_util.h:171:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 171 | register unsigned a,b,c,len; | ^ hash_util.h:171:27: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 171 | register unsigned a,b,c,len; | ^~~ hash_util.h: In member function ‘size_t hash_fncts::operator()(const struct_en*) const’: hash_util.h:212:19: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 212 | register short *k; /* the key */ | ^ hash_util.h:213:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 213 | register unsigned length; /* the length of the key */ | ^~~~~~ hash_util.h:214:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 214 | register unsigned initval=0; /* the previous hash, or an arbitrary value */ | ^~~~~~~ hash_util.h:215:21: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 215 | register unsigned a,b,c,len; | ^ hash_util.h:215:23: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 215 | register unsigned a,b,c,len; | ^ hash_util.h:215:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 215 | register unsigned a,b,c,len; | ^ hash_util.h:215:27: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 215 | register unsigned a,b,c,len; | ^~~ g++ -DHAVE_CONFIG_H -I. -I./../../src/ViennaRNA -I./../../src -DVRNA_WITH_NAVIEW_LAYOUT -Wno-write-strings -Wdate-time -D_FORTIFY_SOURCE=3 -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o main.o main.cpp gcc -DHAVE_CONFIG_H -I. -I./../../src/ViennaRNA -I./../../src -DVRNA_WITH_NAVIEW_LAYOUT -Wno-write-strings -Wdate-time -D_FORTIFY_SOURCE=3 -fexceptions -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o move_set_inside.o move_set_inside.c g++ -DHAVE_CONFIG_H -I. -I./../../src/ViennaRNA -I./../../src -DVRNA_WITH_NAVIEW_LAYOUT -Wno-write-strings -Wdate-time -D_FORTIFY_SOURCE=3 -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o move_set_pk.o move_set_pk.cpp g++ -DHAVE_CONFIG_H -I. -I./../../src/ViennaRNA -I./../../src -DVRNA_WITH_NAVIEW_LAYOUT -Wno-write-strings -Wdate-time -D_FORTIFY_SOURCE=3 -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o neighbourhood.o neighbourhood.cpp In file included from hash_util.cpp:5: hash_util.h: In member function ‘size_t hash_fncts::operator()(const Structure&) const’: hash_util.h:82:19: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 82 | register short *k; /* the key */ | ^ hash_util.h:83:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 83 | register unsigned length; /* the length of the key */ | ^~~~~~ hash_util.h:84:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 84 | register unsigned initval=0; /* the previous hash, or an arbitrary value */ | ^~~~~~~ hash_util.h:85:21: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 85 | register unsigned a,b,c,len; | ^ hash_util.h:85:23: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 85 | register unsigned a,b,c,len; | ^ hash_util.h:85:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 85 | register unsigned a,b,c,len; | ^ hash_util.h:85:27: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 85 | register unsigned a,b,c,len; | ^~~ hash_util.h: In member function ‘size_t hash_fncts::operator()(const struct_en&) const’: hash_util.h:126:19: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 126 | register short *k; /* the key */ | ^ hash_util.h:127:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 127 | register unsigned length; /* the length of the key */ | ^~~~~~ hash_util.h:128:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 128 | register unsigned initval=0; /* the previous hash, or an arbitrary value */ | ^~~~~~~ hash_util.h:129:21: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 129 | register unsigned a,b,c,len; | ^ hash_util.h:129:23: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 129 | register unsigned a,b,c,len; | ^ hash_util.h:129:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 129 | register unsigned a,b,c,len; | ^ hash_util.h:129:27: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 129 | register unsigned a,b,c,len; | ^~~ hash_util.h: In member function ‘size_t hash_fncts::operator()(const Structure*) const’: hash_util.h:168:19: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 168 | register short *k; /* the key */ | ^ hash_util.h:169:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 169 | register unsigned length; /* the length of the key */ | ^~~~~~ hash_util.h:170:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 170 | register unsigned initval=0; /* the previous hash, or an arbitrary value */ | ^~~~~~~ hash_util.h:171:21: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 171 | register unsigned a,b,c,len; | ^ hash_util.h:171:23: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 171 | register unsigned a,b,c,len; | ^ hash_util.h:171:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 171 | register unsigned a,b,c,len; | ^ hash_util.h:171:27: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 171 | register unsigned a,b,c,len; | ^~~ hash_util.h: In member function ‘size_t hash_fncts::operator()(const struct_en*) const’: hash_util.h:212:19: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 212 | register short *k; /* the key */ | ^ hash_util.h:213:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 213 | register unsigned length; /* the length of the key */ | ^~~~~~ hash_util.h:214:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 214 | register unsigned initval=0; /* the previous hash, or an arbitrary value */ | ^~~~~~~ hash_util.h:215:21: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 215 | register unsigned a,b,c,len; | ^ hash_util.h:215:23: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 215 | register unsigned a,b,c,len; | ^ hash_util.h:215:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 215 | register unsigned a,b,c,len; | ^ hash_util.h:215:27: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 215 | register unsigned a,b,c,len; | ^~~ g++ -DHAVE_CONFIG_H -I. -I./../../src/ViennaRNA -I./../../src -DVRNA_WITH_NAVIEW_LAYOUT -Wno-write-strings -Wdate-time -D_FORTIFY_SOURCE=3 -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o pknots.o pknots.cpp In file included from globals.h:10, from RNAlocmin.h:7, from neighbourhood.cpp:8: hash_util.h: In member function ‘size_t hash_fncts::operator()(const Structure&) const’: hash_util.h:82:19: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 82 | register short *k; /* the key */ | ^ hash_util.h:83:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 83 | register unsigned length; /* the length of the key */ | ^~~~~~ hash_util.h:84:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 84 | register unsigned initval=0; /* the previous hash, or an arbitrary value */ | ^~~~~~~ hash_util.h:85:21: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 85 | register unsigned a,b,c,len; | ^ hash_util.h:85:23: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 85 | register unsigned a,b,c,len; | ^ hash_util.h:85:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 85 | register unsigned a,b,c,len; | ^ hash_util.h:85:27: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 85 | register unsigned a,b,c,len; | ^~~ hash_util.h: In member function ‘size_t hash_fncts::operator()(const struct_en&) const’: hash_util.h:126:19: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 126 | register short *k; /* the key */ | ^ hash_util.h:127:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 127 | register unsigned length; /* the length of the key */ | ^~~~~~ hash_util.h:128:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 128 | register unsigned initval=0; /* the previous hash, or an arbitrary value */ | ^~~~~~~ hash_util.h:129:21: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 129 | register unsigned a,b,c,len; | ^ hash_util.h:129:23: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 129 | register unsigned a,b,c,len; | ^ hash_util.h:129:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 129 | register unsigned a,b,c,len; | ^ hash_util.h:129:27: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 129 | register unsigned a,b,c,len; | ^~~ hash_util.h: In member function ‘size_t hash_fncts::operator()(const Structure*) const’: hash_util.h:168:19: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 168 | register short *k; /* the key */ | ^ hash_util.h:169:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 169 | register unsigned length; /* the length of the key */ | ^~~~~~ hash_util.h:170:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 170 | register unsigned initval=0; /* the previous hash, or an arbitrary value */ | ^~~~~~~ hash_util.h:171:21: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 171 | register unsigned a,b,c,len; | ^ hash_util.h:171:23: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 171 | register unsigned a,b,c,len; | ^ hash_util.h:171:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 171 | register unsigned a,b,c,len; | ^ hash_util.h:171:27: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 171 | register unsigned a,b,c,len; | ^~~ hash_util.h: In member function ‘size_t hash_fncts::operator()(const struct_en*) const’: hash_util.h:212:19: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 212 | register short *k; /* the key */ | ^ hash_util.h:213:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 213 | register unsigned length; /* the length of the key */ | ^~~~~~ hash_util.h:214:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 214 | register unsigned initval=0; /* the previous hash, or an arbitrary value */ | ^~~~~~~ hash_util.h:215:21: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 215 | register unsigned a,b,c,len; | ^ hash_util.h:215:23: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 215 | register unsigned a,b,c,len; | ^ hash_util.h:215:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 215 | register unsigned a,b,c,len; | ^ hash_util.h:215:27: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 215 | register unsigned a,b,c,len; | ^~~ In file included from main.cpp:28: hash_util.h: In member function ‘size_t hash_fncts::operator()(const Structure&) const’: hash_util.h:82:19: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 82 | register short *k; /* the key */ | ^ hash_util.h:83:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 83 | register unsigned length; /* the length of the key */ | ^~~~~~ hash_util.h:84:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 84 | register unsigned initval=0; /* the previous hash, or an arbitrary value */ | ^~~~~~~ hash_util.h:85:21: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 85 | register unsigned a,b,c,len; | ^ hash_util.h:85:23: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 85 | register unsigned a,b,c,len; | ^ hash_util.h:85:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 85 | register unsigned a,b,c,len; | ^ hash_util.h:85:27: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 85 | register unsigned a,b,c,len; | ^~~ hash_util.h: In member function ‘size_t hash_fncts::operator()(const struct_en&) const’: hash_util.h:126:19: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 126 | register short *k; /* the key */ | ^ hash_util.h:127:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 127 | register unsigned length; /* the length of the key */ | ^~~~~~ hash_util.h:128:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 128 | register unsigned initval=0; /* the previous hash, or an arbitrary value */ | ^~~~~~~ hash_util.h:129:21: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 129 | register unsigned a,b,c,len; | ^ hash_util.h:129:23: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 129 | register unsigned a,b,c,len; | ^ hash_util.h:129:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 129 | register unsigned a,b,c,len; | ^ hash_util.h:129:27: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 129 | register unsigned a,b,c,len; | ^~~ hash_util.h: In member function ‘size_t hash_fncts::operator()(const Structure*) const’: hash_util.h:168:19: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 168 | register short *k; /* the key */ | ^ hash_util.h:169:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 169 | register unsigned length; /* the length of the key */ | ^~~~~~ hash_util.h:170:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 170 | register unsigned initval=0; /* the previous hash, or an arbitrary value */ | ^~~~~~~ hash_util.h:171:21: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 171 | register unsigned a,b,c,len; | ^ hash_util.h:171:23: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 171 | register unsigned a,b,c,len; | ^ hash_util.h:171:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 171 | register unsigned a,b,c,len; | ^ hash_util.h:171:27: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 171 | register unsigned a,b,c,len; | ^~~ hash_util.h: In member function ‘size_t hash_fncts::operator()(const struct_en*) const’: hash_util.h:212:19: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 212 | register short *k; /* the key */ | ^ hash_util.h:213:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 213 | register unsigned length; /* the length of the key */ | ^~~~~~ hash_util.h:214:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 214 | register unsigned initval=0; /* the previous hash, or an arbitrary value */ | ^~~~~~~ hash_util.h:215:21: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 215 | register unsigned a,b,c,len; | ^ hash_util.h:215:23: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 215 | register unsigned a,b,c,len; | ^ hash_util.h:215:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 215 | register unsigned a,b,c,len; | ^ hash_util.h:215:27: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 215 | register unsigned a,b,c,len; | ^~~ g++ -DHAVE_CONFIG_H -I. -I./../../src/ViennaRNA -I./../../src -DVRNA_WITH_NAVIEW_LAYOUT -Wno-write-strings -Wdate-time -D_FORTIFY_SOURCE=3 -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAlocmin.o RNAlocmin.cpp g++ -DHAVE_CONFIG_H -I. -I./../../src/ViennaRNA -I./../../src -DVRNA_WITH_NAVIEW_LAYOUT -Wno-write-strings -Wdate-time -D_FORTIFY_SOURCE=3 -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o treeplot.o treeplot.cpp In file included from globals.h:10, from RNAlocmin.h:7, from RNAlocmin.cpp:16: hash_util.h: In member function ‘size_t hash_fncts::operator()(const Structure&) const’: hash_util.h:82:19: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 82 | register short *k; /* the key */ | ^ hash_util.h:83:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 83 | register unsigned length; /* the length of the key */ | ^~~~~~ hash_util.h:84:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 84 | register unsigned initval=0; /* the previous hash, or an arbitrary value */ | ^~~~~~~ hash_util.h:85:21: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 85 | register unsigned a,b,c,len; | ^ hash_util.h:85:23: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 85 | register unsigned a,b,c,len; | ^ hash_util.h:85:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 85 | register unsigned a,b,c,len; | ^ hash_util.h:85:27: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 85 | register unsigned a,b,c,len; | ^~~ hash_util.h: In member function ‘size_t hash_fncts::operator()(const struct_en&) const’: hash_util.h:126:19: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 126 | register short *k; /* the key */ | ^ hash_util.h:127:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 127 | register unsigned length; /* the length of the key */ | ^~~~~~ hash_util.h:128:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 128 | register unsigned initval=0; /* the previous hash, or an arbitrary value */ | ^~~~~~~ hash_util.h:129:21: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 129 | register unsigned a,b,c,len; | ^ hash_util.h:129:23: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 129 | register unsigned a,b,c,len; | ^ hash_util.h:129:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 129 | register unsigned a,b,c,len; | ^ hash_util.h:129:27: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 129 | register unsigned a,b,c,len; | ^~~ hash_util.h: In member function ‘size_t hash_fncts::operator()(const Structure*) const’: hash_util.h:168:19: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 168 | register short *k; /* the key */ | ^ hash_util.h:169:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 169 | register unsigned length; /* the length of the key */ | ^~~~~~ hash_util.h:170:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 170 | register unsigned initval=0; /* the previous hash, or an arbitrary value */ | ^~~~~~~ hash_util.h:171:21: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 171 | register unsigned a,b,c,len; | ^ hash_util.h:171:23: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 171 | register unsigned a,b,c,len; | ^ hash_util.h:171:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 171 | register unsigned a,b,c,len; | ^ hash_util.h:171:27: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 171 | register unsigned a,b,c,len; | ^~~ hash_util.h: In member function ‘size_t hash_fncts::operator()(const struct_en*) const’: hash_util.h:212:19: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 212 | register short *k; /* the key */ | ^ hash_util.h:213:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 213 | register unsigned length; /* the length of the key */ | ^~~~~~ hash_util.h:214:22: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 214 | register unsigned initval=0; /* the previous hash, or an arbitrary value */ | ^~~~~~~ hash_util.h:215:21: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 215 | register unsigned a,b,c,len; | ^ hash_util.h:215:23: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 215 | register unsigned a,b,c,len; | ^ hash_util.h:215:25: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 215 | register unsigned a,b,c,len; | ^ hash_util.h:215:27: warning: ISO C++17 does not allow ‘register’ storage class specifier [-Wregister] 215 | register unsigned a,b,c,len; | ^~~ gcc -DHAVE_CONFIG_H -I. -I./../../src/ViennaRNA -I./../../src -DVRNA_WITH_NAVIEW_LAYOUT -Wno-write-strings -Wdate-time -D_FORTIFY_SOURCE=3 -fexceptions -I/usr/include/json-c/ -I/usr/include/libsvm/ -c -o RNAlocmin_cmdline.o RNAlocmin_cmdline.c g++ -I/usr/include/json-c/ -I/usr/include/libsvm/ -Wl,-Bsymbolic-functions -Wl,-z,relro -o RNAlocmin RNAlocmin_cmdline.o barrier_tree.o findpath_pk.o flood.o globals.o hash_util.o main.o move_set_inside.o move_set_pk.o neighbourhood.o pknots.o RNAlocmin.o treeplot.o -fno-strict-aliasing -flto -L./../../src/ViennaRNA -lRNA -fopenmp -lgsl -lgslcblas -lpthread -lmpfr -lgmp make[5]: Leaving directory '/<>/src/RNAlocmin' make[4]: Leaving directory '/<>/src/RNAlocmin' Making all in tests make[4]: Entering directory '/<>/tests' cp ../interfaces/Perl/RNA/t/Design.t ./perl5/test-RNA-Design.t make all-am make[5]: Entering directory '/<>/tests' make[5]: Nothing to be done for 'all-am'. make[5]: Leaving directory '/<>/tests' make[4]: Leaving directory '/<>/tests' Making all in examples make[4]: Entering directory '/<>/examples' make[4]: Nothing to be done for 'all'. make[4]: Leaving directory '/<>/examples' Making all in packaging/macosx make[4]: Entering directory '/<>/packaging/macosx' make[4]: Nothing to be done for 'all'. make[4]: Leaving directory '/<>/packaging/macosx' make[4]: Entering directory '/<>' make[4]: Leaving directory '/<>' make[3]: Leaving directory '/<>' make[2]: Leaving directory '/<>' if [ -r doc/RNAlib-*pdf; then cd doc && ln -f RNAlib-*.pdf RNAlib.pdf; fi /bin/bash: line 1: [: missing `]' make[1]: Leaving directory '/<>' dh: command-omitted: The call to "dh_auto_test -a" was omitted due to "DEB_BUILD_OPTIONS=nocheck" create-stamp debian/debhelper-build-stamp dh_prep -a dh_installdirs -a debian/rules override_dh_auto_install make[1]: Entering directory '/<>' # rename perl scripts to remove the *.pl extension and create manpage via perldoc mkdir -p /<>/debian/tmp/usr/bin mkdir -p /<>/debian/tmp/usr/share/man/man1 #for script in `ls Utils/*.pl` ; do \ # newscript=`basename ${script} .pl` ; \ # cp -a ${script} /<>/debian/tmp/usr/bin/${newscript} ; \ # perldoc -onroff -F ${script} | \ # sed -e "s/${newscript}\.pl/${newscript}/g" \ # > /<>/debian/tmp/usr/share/man/man1/${newscript}.1 ; \ # if [ ! -s /<>/debian/tmp/usr/share/man/man1/${newscript}.1 ] ; then \ # rm -f /<>/debian/tmp/usr/share/man/man1/${newscript}.1 ; \ # fi ; \ #done dh_auto_install make -j1 install DESTDIR=/<>/vienna-rna-2.5.1\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no make[2]: Entering directory '/<>' Making install in src make[3]: Entering directory '/<>/src' Making install in ViennaRNA make[4]: Entering directory '/<>/src/ViennaRNA' Making install in static make[5]: Entering directory '/<>/src/ViennaRNA/static' make install-am make[6]: Entering directory '/<>/src/ViennaRNA/static' make[7]: Entering directory '/<>/src/ViennaRNA/static' make[7]: Nothing to be done for 'install-exec-am'. make[7]: Nothing to be done for 'install-data-am'. make[7]: Leaving directory '/<>/src/ViennaRNA/static' make[6]: Leaving directory '/<>/src/ViennaRNA/static' make[5]: Leaving directory '/<>/src/ViennaRNA/static' Making install in plotting/naview make[5]: Entering directory '/<>/src/ViennaRNA/plotting/naview' make[6]: Entering directory '/<>/src/ViennaRNA/plotting/naview' make[6]: Nothing to be done for 'install-exec-am'. /usr/bin/mkdir -p '/<>/debian/tmp/usr/include/ViennaRNA/plotting/naview' /usr/bin/install -c -m 644 naview.h '/<>/debian/tmp/usr/include/ViennaRNA/plotting/naview' make[6]: Leaving directory '/<>/src/ViennaRNA/plotting/naview' make[5]: Leaving directory '/<>/src/ViennaRNA/plotting/naview' make[5]: Entering directory '/<>/src/ViennaRNA' make[6]: Entering directory '/<>/src/ViennaRNA' /usr/bin/mkdir -p '/<>/debian/tmp/usr/lib/riscv64-linux-gnu' /bin/bash ../../libtool --mode=install /usr/bin/install -c libRNA.la '/<>/debian/tmp/usr/lib/riscv64-linux-gnu' libtool: install: /usr/bin/install -c .libs/libRNA.lai /<>/debian/tmp/usr/lib/riscv64-linux-gnu/libRNA.la libtool: install: /usr/bin/install -c .libs/libRNA.a /<>/debian/tmp/usr/lib/riscv64-linux-gnu/libRNA.a libtool: install: chmod 644 /<>/debian/tmp/usr/lib/riscv64-linux-gnu/libRNA.a libtool: install: gcc-ranlib /<>/debian/tmp/usr/lib/riscv64-linux-gnu/libRNA.a libtool: warning: remember to run 'libtool --finish /usr/lib/riscv64-linux-gnu' /usr/bin/mkdir -p '/<>/debian/tmp/usr/include/ViennaRNA' /usr/bin/install -c -m 644 vrna_config.h '/<>/debian/tmp/usr/include/ViennaRNA' /usr/bin/mkdir -p '/<>/debian/tmp/usr/include/ViennaRNA' /usr/bin/install -c -m 644 concentrations.h wrap_dlib.h pair_mat.h RNAstruct.h dist_vars.h mfe.h mfe_window.h fold.h part_func.h part_func_window.h pf_multifold.h stringdist.h edit_cost.h fold_vars.h profiledist.h treedist.h inverse.h subopt.h subopt_zuker.h cofold.h duplex.h alifold.h part_func_co.h ProfileAln.h LPfold.h Lfold.h part_func_up.h ribo.h findpath.h data_structures.h char_stream.h stream_output.h fold_compound.h MEA.h mm.h loop_energies.h exterior_loops.h hairpin_loops.h interior_loops.h multibranch_loops.h '/<>/debian/tmp/usr/include/ViennaRNA' /usr/bin/install -c -m 644 2Dfold.h 2Dpfold.h PKplex.h pk_plex.h ali_plex.h plex.h snofold.h snoop.h move_set.h gquad.h constraints.h eval.h perturbation_fold.h centroid.h utils.h structure_utils.h string_utils.h aln_util.h model.h dp_matrices.h PS_dot.h plot_structure.h plot_aln.h plot_utils.h plot_layouts.h boltzmann_sampling.h equilibrium_probs.h constraints_ligand.h constraints_SHAPE.h constraints_hard.h constraints_soft.h alphabet.h sequence.h grammar.h structured_domains.h unstructured_domains.h file_utils.h file_formats.h file_formats_msa.h energy_par.h '/<>/debian/tmp/usr/include/ViennaRNA' /usr/bin/install -c -m 644 energy_const.h params.h read_epars.h convert_epars.h commands.h units.h combinatorics.h neighbor.h walk.h heat_capacity.h naview.h '/<>/debian/tmp/usr/include/ViennaRNA' /usr/bin/mkdir -p '/<>/debian/tmp/usr/include/ViennaRNA/constraints' /usr/bin/install -c -m 644 constraints/basic.h constraints/ligand.h constraints/SHAPE.h constraints/hard.h constraints/soft.h '/<>/debian/tmp/usr/include/ViennaRNA/constraints' /usr/bin/mkdir -p '/<>/debian/tmp/usr/include/ViennaRNA/datastructures' /usr/bin/install -c -m 644 datastructures/basic.h datastructures/lists.h datastructures/char_stream.h datastructures/stream_output.h datastructures/hash_tables.h datastructures/heap.h '/<>/debian/tmp/usr/include/ViennaRNA/datastructures' /usr/bin/mkdir -p '/<>/debian/tmp/usr/include/ViennaRNA/io' /usr/bin/install -c -m 644 io/utils.h io/file_formats.h io/file_formats_msa.h '/<>/debian/tmp/usr/include/ViennaRNA/io' /usr/bin/mkdir -p '/<>/debian/tmp/usr/include/ViennaRNA/landscape' /usr/bin/install -c -m 644 landscape/paths.h landscape/findpath.h landscape/neighbor.h landscape/walk.h landscape/move.h '/<>/debian/tmp/usr/include/ViennaRNA/landscape' /usr/bin/mkdir -p '/<>/debian/tmp/usr/include/ViennaRNA/loops' /usr/bin/install -c -m 644 loops/all.h loops/external.h loops/hairpin.h loops/internal.h loops/multibranch.h '/<>/debian/tmp/usr/include/ViennaRNA/loops' /usr/bin/mkdir -p '/<>/debian/tmp/usr/include/ViennaRNA/params' /usr/bin/install -c -m 644 params/default.h params/constants.h params/basic.h params/io.h params/convert.h '/<>/debian/tmp/usr/include/ViennaRNA/params' /usr/bin/mkdir -p '/<>/debian/tmp/usr/include/ViennaRNA/plotting' /usr/bin/install -c -m 644 plotting/alignments.h plotting/layouts.h plotting/probabilities.h plotting/structures.h plotting/utils.h '/<>/debian/tmp/usr/include/ViennaRNA/plotting' /usr/bin/mkdir -p '/<>/debian/tmp/usr/include/ViennaRNA/plotting/RNApuzzler' /usr/bin/install -c -m 644 plotting/RNApuzzler/RNApuzzler.h plotting/RNApuzzler/RNAturtle.h '/<>/debian/tmp/usr/include/ViennaRNA/plotting/RNApuzzler' /usr/bin/mkdir -p '/<>/debian/tmp/usr/include/ViennaRNA/search' /usr/bin/install -c -m 644 search/BoyerMoore.h '/<>/debian/tmp/usr/include/ViennaRNA/search' /usr/bin/mkdir -p '/<>/debian/tmp/usr/include/ViennaRNA/utils' /usr/bin/install -c -m 644 utils/basic.h utils/strings.h utils/structures.h utils/alignments.h utils/higher_order_functions.h utils/cpu.h utils/units.h '/<>/debian/tmp/usr/include/ViennaRNA/utils' make[6]: Leaving directory '/<>/src/ViennaRNA' make[5]: Leaving directory '/<>/src/ViennaRNA' make[4]: Leaving directory '/<>/src/ViennaRNA' Making install in bin make[4]: Entering directory '/<>/src/bin' make[5]: Entering directory '/<>/src/bin' /usr/bin/mkdir -p '/<>/debian/tmp/usr/bin' /bin/bash ../../libtool --mode=install /usr/bin/install -c RNAfold RNAeval RNAheat RNApdist RNAdistance RNAinverse RNAplot RNAsubopt RNALfold RNAcofold RNApaln RNAduplex RNAalifold RNAplfold RNAup RNAaliduplex RNALalifold RNA2Dfold RNAparconv RNAPKplex RNAplex RNAsnoop RNApvmin RNAdos RNAmultifold '/<>/debian/tmp/usr/bin' libtool: install: /usr/bin/install -c RNAfold /<>/debian/tmp/usr/bin/RNAfold libtool: install: /usr/bin/install -c RNAeval /<>/debian/tmp/usr/bin/RNAeval libtool: install: /usr/bin/install -c RNAheat /<>/debian/tmp/usr/bin/RNAheat libtool: install: /usr/bin/install -c RNApdist /<>/debian/tmp/usr/bin/RNApdist libtool: install: /usr/bin/install -c RNAdistance /<>/debian/tmp/usr/bin/RNAdistance libtool: install: /usr/bin/install -c RNAinverse /<>/debian/tmp/usr/bin/RNAinverse libtool: install: /usr/bin/install -c RNAplot /<>/debian/tmp/usr/bin/RNAplot libtool: install: /usr/bin/install -c RNAsubopt /<>/debian/tmp/usr/bin/RNAsubopt libtool: install: /usr/bin/install -c RNALfold /<>/debian/tmp/usr/bin/RNALfold libtool: install: /usr/bin/install -c RNAcofold /<>/debian/tmp/usr/bin/RNAcofold libtool: install: /usr/bin/install -c RNApaln /<>/debian/tmp/usr/bin/RNApaln libtool: install: /usr/bin/install -c RNAduplex /<>/debian/tmp/usr/bin/RNAduplex libtool: install: /usr/bin/install -c RNAalifold /<>/debian/tmp/usr/bin/RNAalifold libtool: install: /usr/bin/install -c RNAplfold /<>/debian/tmp/usr/bin/RNAplfold libtool: install: /usr/bin/install -c RNAup /<>/debian/tmp/usr/bin/RNAup libtool: install: /usr/bin/install -c RNAaliduplex /<>/debian/tmp/usr/bin/RNAaliduplex libtool: install: /usr/bin/install -c RNALalifold /<>/debian/tmp/usr/bin/RNALalifold libtool: install: /usr/bin/install -c RNA2Dfold /<>/debian/tmp/usr/bin/RNA2Dfold libtool: install: /usr/bin/install -c RNAparconv /<>/debian/tmp/usr/bin/RNAparconv libtool: install: /usr/bin/install -c RNAPKplex /<>/debian/tmp/usr/bin/RNAPKplex libtool: install: /usr/bin/install -c RNAplex /<>/debian/tmp/usr/bin/RNAplex libtool: install: /usr/bin/install -c RNAsnoop /<>/debian/tmp/usr/bin/RNAsnoop libtool: install: /usr/bin/install -c RNApvmin /<>/debian/tmp/usr/bin/RNApvmin libtool: install: /usr/bin/install -c RNAdos /<>/debian/tmp/usr/bin/RNAdos libtool: install: /usr/bin/install -c RNAmultifold /<>/debian/tmp/usr/bin/RNAmultifold make[5]: Nothing to be done for 'install-data-am'. make[5]: Leaving directory '/<>/src/bin' make[4]: Leaving directory '/<>/src/bin' Making install in Utils make[4]: Entering directory '/<>/src/Utils' make[5]: Entering directory '/<>/src/Utils' /usr/bin/mkdir -p '/<>/debian/tmp/usr/bin' /bin/bash ../../libtool --mode=install /usr/bin/install -c b2ct popt ct2db '/<>/debian/tmp/usr/bin' libtool: install: /usr/bin/install -c b2ct /<>/debian/tmp/usr/bin/b2ct libtool: install: /usr/bin/install -c popt /<>/debian/tmp/usr/bin/popt libtool: install: /usr/bin/install -c ct2db /<>/debian/tmp/usr/bin/ct2db /usr/bin/mkdir -p '/<>/debian/tmp/usr/share/ViennaRNA/bin' /usr/bin/install -c b2mt.pl dpzoom.pl mountain.pl relplot.pl rotate_ss.pl cmount.pl coloraln.pl refold.pl switch.pl RNAdesign.pl '/<>/debian/tmp/usr/share/ViennaRNA/bin' make install-data-hook make[6]: Entering directory '/<>/src/Utils' for i in b2mt.pl dpzoom.pl mountain.pl relplot.pl rotate_ss.pl cmount.pl coloraln.pl refold.pl switch.pl RNAdesign.pl; \ do \ /usr/bin/perl -npi -e 's|^#!\S+|#!'/usr/bin/perl'|' /<>/debian/tmp/usr/share/ViennaRNA/bin/$i ; \ done make[6]: Leaving directory '/<>/src/Utils' make[5]: Leaving directory '/<>/src/Utils' make[4]: Leaving directory '/<>/src/Utils' Making install in Cluster make[4]: Entering directory '/<>/src/Cluster' make[5]: Entering directory '/<>/src/Cluster' /usr/bin/mkdir -p '/<>/debian/tmp/usr/bin' /bin/bash ../../libtool --mode=install /usr/bin/install -c AnalyseDists AnalyseSeqs '/<>/debian/tmp/usr/bin' libtool: install: /usr/bin/install -c AnalyseDists /<>/debian/tmp/usr/bin/AnalyseDists libtool: install: /usr/bin/install -c AnalyseSeqs /<>/debian/tmp/usr/bin/AnalyseSeqs /usr/bin/mkdir -p '/<>/debian/tmp/usr/share/man/man1' /usr/bin/install -c -m 644 AnalyseDists.1 AnalyseSeqs.1 '/<>/debian/tmp/usr/share/man/man1' make[5]: Leaving directory '/<>/src/Cluster' make[4]: Leaving directory '/<>/src/Cluster' make[4]: Entering directory '/<>/src' make[5]: Entering directory '/<>/src' make[5]: Nothing to be done for 'install-exec-am'. make[5]: Nothing to be done for 'install-data-am'. make[5]: Leaving directory '/<>/src' make[4]: Leaving directory '/<>/src' make[3]: Leaving directory '/<>/src' Making install in man make[3]: Entering directory '/<>/man' make[4]: Entering directory '/<>/man' make[4]: Nothing to be done for 'install-exec-am'. /usr/bin/mkdir -p '/<>/debian/tmp/usr/share/info' /usr/bin/install -c -m 644 ./RNAlib.info '/<>/debian/tmp/usr/share/info' /usr/bin/mkdir -p '/<>/debian/tmp/usr/share/man/man1' /usr/bin/install -c -m 644 RNA2Dfold.1 RNAaliduplex.1 RNAalifold.1 RNAcofold.1 RNAduplex.1 RNAeval.1 RNAfold.1 RNAheat.1 RNAinverse.1 RNALalifold.1 RNALfold.1 RNAmultifold.1 RNApaln.1 RNAparconv.1 RNAplfold.1 RNAplot.1 RNApvmin.1 RNAsubopt.1 RNAup.1 RNAPKplex.1 RNAsnoop.1 RNAplex.1 RNAdistance.1 RNApdist.1 RNAdos.1 ct2db.1 '/<>/debian/tmp/usr/share/man/man1' make[4]: Leaving directory '/<>/man' make[3]: Leaving directory '/<>/man' Making install in misc make[3]: Entering directory '/<>/misc' make[4]: Entering directory '/<>/misc' make[4]: Nothing to be done for 'install-exec-am'. /usr/bin/mkdir -p '/<>/debian/tmp/usr/share/ViennaRNA' /usr/bin/install -c -m 644 2Dlandscape_mfe.gri 2Dlandscape_pf.gri rna_turner1999.par rna_turner2004.par rna_andronescu2007.par dna_mathews1999.par dna_mathews2004.par rna_langdon2018.par rna_misc_special_hairpins.par 2Dlandscape.R '/<>/debian/tmp/usr/share/ViennaRNA' make[4]: Leaving directory '/<>/misc' make[3]: Leaving directory '/<>/misc' Making install in doc make[3]: Entering directory '/<>/doc' Making install in CLA make[4]: Entering directory '/<>/doc/CLA' make[5]: Entering directory '/<>/doc/CLA' make[5]: Nothing to be done for 'install-exec-am'. for dir in "/<>/debian/tmp/usr/share/doc/ViennaRNA"; do \ test -z "$dir" || /usr/bin/mkdir -p "$dir"; \ done test -f ./ViennaRNA-CLA-Individual.pdf || ln -s ./ViennaRNA-CLA-Individual.pdf ./ViennaRNA-CLA-Individual.pdf /usr/bin/install -c -m 644 ./ViennaRNA-CLA-Individual.pdf /<>/debian/tmp/usr/share/doc/ViennaRNA { test ! -h ./ViennaRNA-CLA-Individual.pdf || rm -f ./ViennaRNA-CLA-Individual.pdf; } test -f ./ViennaRNA-CLA-Entity.pdf || ln -s ./ViennaRNA-CLA-Entity.pdf ./ViennaRNA-CLA-Entity.pdf /usr/bin/install -c -m 644 ./ViennaRNA-CLA-Entity.pdf /<>/debian/tmp/usr/share/doc/ViennaRNA { test ! -h ./ViennaRNA-CLA-Entity.pdf || rm -f ./ViennaRNA-CLA-Entity.pdf; } make[5]: Leaving directory '/<>/doc/CLA' make[4]: Leaving directory '/<>/doc/CLA' make[4]: Entering directory '/<>/doc' make[5]: Entering directory '/<>/doc' make[5]: Nothing to be done for 'install-exec-am'. /usr/bin/mkdir -p '/<>/debian/tmp/usr/share/ViennaRNA' /usr/bin/install -c -m 644 viennarna.bib DoxygenLayout.xml '/<>/debian/tmp/usr/share/ViennaRNA' make[5]: Leaving directory '/<>/doc' make[4]: Leaving directory '/<>/doc' make[3]: Leaving directory '/<>/doc' Making install in RNA-Tutorial make[3]: Entering directory '/<>/RNA-Tutorial' make[4]: Entering directory '/<>/RNA-Tutorial' make[4]: Nothing to be done for 'install-exec-am'. make[4]: Leaving directory '/<>/RNA-Tutorial' make[3]: Leaving directory '/<>/RNA-Tutorial' Making install in interfaces make[3]: Entering directory '/<>/interfaces' Making install in Perl make[4]: Entering directory '/<>/interfaces/Perl' make[5]: Entering directory '/<>/interfaces/Perl' make[5]: Nothing to be done for 'install-exec-am'. /usr/bin/mkdir -p '/<>/debian/tmp/usr/share/perl/5.38.2' /usr/bin/mkdir -p '/<>/debian/tmp/usr/share/perl/5.38.2/RNA' /usr/bin/install -c -m 644 RNA/Benchmark.pm RNA/Design.pm RNA/Files.pm RNA/Reliability.pm RNA/Utils.pm RNA/Params.pm '/<>/debian/tmp/usr/share/perl/5.38.2/RNA' /usr/bin/install -c -m 644 RNA.pm '/<>/debian/tmp/usr/share/perl/5.38.2/.' /usr/bin/mkdir -p '/<>/debian/tmp/usr/lib/riscv64-linux-gnu/perl/5.38.2/auto/RNA' /bin/bash ../../libtool --mode=install /usr/bin/install -c RNA.la '/<>/debian/tmp/usr/lib/riscv64-linux-gnu/perl/5.38.2/auto/RNA' libtool: install: /usr/bin/install -c .libs/RNA.so /<>/debian/tmp/usr/lib/riscv64-linux-gnu/perl/5.38.2/auto/RNA/RNA.so libtool: install: /usr/bin/install -c .libs/RNA.lai /<>/debian/tmp/usr/lib/riscv64-linux-gnu/perl/5.38.2/auto/RNA/RNA.la libtool: warning: remember to run 'libtool --finish /usr/lib/riscv64-linux-gnu/perl/5.38.2/auto/RNA' make install-data-hook make[6]: Entering directory '/<>/interfaces/Perl' rm -f /<>/debian/tmp/usr/lib/riscv64-linux-gnu/perl/5.38.2/auto/RNA/RNA.la make[6]: Leaving directory '/<>/interfaces/Perl' make[5]: Leaving directory '/<>/interfaces/Perl' make[4]: Leaving directory '/<>/interfaces/Perl' Making install in Python make[4]: Entering directory '/<>/interfaces/Python' make[5]: Entering directory '/<>/interfaces/Python' /usr/bin/mkdir -p '/<>/debian/tmp/usr/lib/python3.12/site-packages/RNA' /usr/bin/install -c -m 644 RNA/__init__.py '/<>/debian/tmp/usr/lib/python3.12/site-packages/RNA' /usr/bin/mkdir -p '/<>/debian/tmp/usr/lib/python3.12/site-packages/RNA' /bin/bash ../../libtool --mode=install /usr/bin/install -c _RNA.la '/<>/debian/tmp/usr/lib/python3.12/site-packages/RNA' libtool: install: /usr/bin/install -c .libs/_RNA.so /<>/debian/tmp/usr/lib/python3.12/site-packages/RNA/_RNA.so libtool: install: /usr/bin/install -c .libs/_RNA.lai /<>/debian/tmp/usr/lib/python3.12/site-packages/RNA/_RNA.la libtool: warning: remember to run 'libtool --finish /usr/lib/python3.12/site-packages/RNA' /usr/bin/mkdir -p '/<>/debian/tmp/usr/lib/python3.12/site-packages/RNA/__pycache__' /usr/bin/install -c -m 644 RNA/__pycache__/__init__.cpython-312.pyc RNA/__pycache__/__init__.cpython-312.opt-1.pyc '/<>/debian/tmp/usr/lib/python3.12/site-packages/RNA/__pycache__' make install-data-hook make[6]: Entering directory '/<>/interfaces/Python' rm -f /<>/debian/tmp/usr/lib/python3.12/site-packages/RNA/_RNA.la make[6]: Leaving directory '/<>/interfaces/Python' make[5]: Leaving directory '/<>/interfaces/Python' make[4]: Leaving directory '/<>/interfaces/Python' make[4]: Entering directory '/<>/interfaces' make[5]: Entering directory '/<>/interfaces' make[5]: Nothing to be done for 'install-exec-am'. make[5]: Nothing to be done for 'install-data-am'. make[5]: Leaving directory '/<>/interfaces' make[4]: Leaving directory '/<>/interfaces' make[3]: Leaving directory '/<>/interfaces' Making install in src/Kinfold make[3]: Entering directory '/<>/src/Kinfold' Making install in Example make[4]: Entering directory '/<>/src/Kinfold/Example' make[5]: Entering directory '/<>/src/Kinfold/Example' make[5]: Nothing to be done for 'install-exec-am'. make[5]: Nothing to be done for 'install-data-am'. make[5]: Leaving directory '/<>/src/Kinfold/Example' make[4]: Leaving directory '/<>/src/Kinfold/Example' make[4]: Entering directory '/<>/src/Kinfold' make[5]: Entering directory '/<>/src/Kinfold' /usr/bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c Kinfold '/<>/debian/tmp/usr/bin' /usr/bin/mkdir -p '/<>/debian/tmp/usr/share/man/man1' /usr/bin/install -c -m 644 Kinfold.1 '/<>/debian/tmp/usr/share/man/man1' make[5]: Leaving directory '/<>/src/Kinfold' make[4]: Leaving directory '/<>/src/Kinfold' make[3]: Leaving directory '/<>/src/Kinfold' Making install in src/RNAlocmin make[3]: Entering directory '/<>/src/RNAlocmin' make[4]: Entering directory '/<>/src/RNAlocmin' /usr/bin/mkdir -p '/<>/debian/tmp/usr/bin' /usr/bin/install -c RNAlocmin '/<>/debian/tmp/usr/bin' /usr/bin/mkdir -p '/<>/debian/tmp/usr/share/man/man1' /usr/bin/install -c -m 644 RNAlocmin.1 '/<>/debian/tmp/usr/share/man/man1' make[4]: Leaving directory '/<>/src/RNAlocmin' make[3]: Leaving directory '/<>/src/RNAlocmin' Making install in tests make[3]: Entering directory '/<>/tests' make install-am make[4]: Entering directory '/<>/tests' make[5]: Entering directory '/<>/tests' make[5]: Nothing to be done for 'install-exec-am'. make[5]: Nothing to be done for 'install-data-am'. make[5]: Leaving directory '/<>/tests' make[4]: Leaving directory '/<>/tests' make[3]: Leaving directory '/<>/tests' Making install in examples make[3]: Entering directory '/<>/examples' make[4]: Entering directory '/<>/examples' make[4]: Nothing to be done for 'install-exec-am'. /usr/bin/mkdir -p '/<>/debian/tmp/usr/share/ViennaRNA/examples' /usr/bin/install -c -m 644 callback_subopt.c example1.c example_old.c fold_compound_md.c fold_compound_mfe.c helloworld_mfe.c helloworld_mfe_comparative.c helloworld_probabilities.c soft_constraints_up.c '/<>/debian/tmp/usr/share/ViennaRNA/examples' /usr/bin/mkdir -p '/<>/debian/tmp/usr/share/ViennaRNA/examples/data' /usr/bin/install -c -m 644 files/alignment_clustal.aln files/alignment_fasta.fa files/alignment_stockholm.stk files/alignment_maf.maf '/<>/debian/tmp/usr/share/ViennaRNA/examples/data' /usr/bin/mkdir -p '/<>/debian/tmp/usr/share/ViennaRNA/examples/perl5' /usr/bin/install -c -m 644 Perl5/helloworld_mfe.pl Perl5/helloworld_mfe_comparative.pl Perl5/helloworld_nondefault.pl Perl5/maximum_matching.pl Perl5/oo_example1.pl '/<>/debian/tmp/usr/share/ViennaRNA/examples/perl5' /usr/bin/mkdir -p '/<>/debian/tmp/usr/share/ViennaRNA/examples/python' /usr/bin/install -c -m 644 Python/boltzmann_sampling.py Python/helloworld_mfe_comparative.py Python/helloworld_mfe.py Python/helloworld_nondefault.py Python/maximum_matching.py Python/oo_example1.py Python/subopt.py Python/RNAfold_MEA.py '/<>/debian/tmp/usr/share/ViennaRNA/examples/python' make[4]: Leaving directory '/<>/examples' make[3]: Leaving directory '/<>/examples' Making install in packaging/macosx make[3]: Entering directory '/<>/packaging/macosx' make[4]: Entering directory '/<>/packaging/macosx' make[4]: Nothing to be done for 'install-exec-am'. make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/packaging/macosx' make[3]: Leaving directory '/<>/packaging/macosx' make[3]: Entering directory '/<>' make[4]: Entering directory '/<>' make[4]: Nothing to be done for 'install-exec-am'. /usr/bin/mkdir -p '/<>/debian/tmp/usr/lib/riscv64-linux-gnu/pkgconfig' /usr/bin/install -c -m 644 RNAlib2.pc '/<>/debian/tmp/usr/lib/riscv64-linux-gnu/pkgconfig' make[4]: Leaving directory '/<>' make[3]: Leaving directory '/<>' make[2]: Leaving directory '/<>' find debian/ -name .gitignore -delete make[1]: Leaving directory '/<>' dh_install -a dh_installdocs -a dh_installchangelogs -a dh_installman -a dh_installinfo -a dh_python3 -a I: dh_python3 fs:418: renaming _RNA.so to _RNA.cpython-312-riscv64-linux-gnu.so dh_lintian -a dh_perl -a dh_link -a dh_strip_nondeterminism -a debian/rules override_dh_compress make[1]: Entering directory '/<>' dh_compress --exclude=.pdf make[1]: Leaving directory '/<>' dh_fixperms -a dh_dwz -a dwz: debian/python3-rna/usr/lib/python3/dist-packages/RNA/_RNA.cpython-312-riscv64-linux-gnu.so: .debug_info section not present dwz: debian/vienna-rna/usr/bin/AnalyseDists: .debug_info section not present dwz: debian/vienna-rna/usr/bin/AnalyseSeqs: .debug_info section not present dwz: debian/vienna-rna/usr/bin/Kinfold: .debug_info section not present dwz: debian/vienna-rna/usr/bin/RNA2Dfold: .debug_info section not present dwz: debian/vienna-rna/usr/bin/RNALalifold: .debug_info section not present dwz: debian/vienna-rna/usr/bin/RNALfold: .debug_info section not present dwz: debian/vienna-rna/usr/bin/RNAPKplex: .debug_info section not present dwz: debian/vienna-rna/usr/bin/RNAaliduplex: .debug_info section not present dwz: debian/vienna-rna/usr/bin/RNAalifold: .debug_info section not present dwz: debian/vienna-rna/usr/bin/RNAcofold: .debug_info section not present dwz: debian/vienna-rna/usr/bin/RNAdistance: .debug_info section not present dwz: debian/vienna-rna/usr/bin/RNAdos: .debug_info section not present dwz: debian/vienna-rna/usr/bin/RNAduplex: .debug_info section not present dwz: debian/vienna-rna/usr/bin/RNAeval: .debug_info section not present dwz: debian/vienna-rna/usr/bin/RNAfold: .debug_info section not present dwz: debian/vienna-rna/usr/bin/RNAheat: .debug_info section not present dwz: debian/vienna-rna/usr/bin/RNAinverse: .debug_info section not present dwz: debian/vienna-rna/usr/bin/RNAlocmin: .debug_info section not present dwz: debian/vienna-rna/usr/bin/RNAmultifold: .debug_info section not present dwz: debian/vienna-rna/usr/bin/RNApaln: .debug_info section not present dwz: debian/vienna-rna/usr/bin/RNAparconv: .debug_info section not present dwz: debian/vienna-rna/usr/bin/RNApdist: .debug_info section not present dwz: debian/vienna-rna/usr/bin/RNAplex: .debug_info section not present dwz: debian/vienna-rna/usr/bin/RNAplfold: .debug_info section not present dwz: debian/vienna-rna/usr/bin/RNAplot: .debug_info section not present dwz: debian/vienna-rna/usr/bin/RNApvmin: .debug_info section not present dwz: debian/vienna-rna/usr/bin/RNAsnoop: .debug_info section not present dwz: debian/vienna-rna/usr/bin/RNAsubopt: .debug_info section not present dwz: debian/vienna-rna/usr/bin/RNAup: .debug_info section not present dwz: debian/vienna-rna/usr/bin/b2ct: .debug_info section not present dwz: debian/vienna-rna/usr/bin/ct2db: .debug_info section not present dwz: debian/vienna-rna/usr/bin/popt: .debug_info section not present dwz: Too few files for multifile optimization dh_dwz: warning: No dwz multifile created, but not explicitly requested either so ignoring it. dh_dwz: warning: Common issues include no debug information at all (missing -g) and dh_dwz: warning: compressed debug information (#931891). dh_strip -a c4a50488e0b8c4c6b3cbd4abe51396fcb21d9771 38bcbdcb7cc7082289eeeb9e493d1960a969d0ac 84fcf2a1ffc31c28eb8639d00f4831fcbe2c4f0f b39c70c5085a02d0e4f596744b2a23216d72e456 278d11579c9cdc83753c7022c94b6d22834bdb2d c4a4c76beeb69a63e447742534fb15066db3b52b d76e7dbf27db6e1a4d7f3a6d343999714b95d0a4 e10c382c9b199329421b7101678f71185d4e9e8f 7eba9c508ce8efd13524c9cb719173542655be3b d29e84eab77f8451b17a269373ec9248a6f3767f 0686c394b61ae0c8602bc8e9d04438df65226d77 be9076db5c94deece085f2b29965d84b206ab6bb 00d499d6ee71a79cbe174b8a56785074f47cd1d8 e58773001a309e15c862f96b249c9ca9d867d8ac 00a4c706cd5775d744fa0f2e73d5a89f1f56728f f22091768096f276f10e7f5faf923d35b334e2bb b5877e49c6e86ef8217ba7297fd7db080d325f3a 67f791a0f5727c3df9ec797ceb321433ed74dead b77651d9f7dc82cfb1ec467a040dcad38d38eaef 970cf332b0638dd7a8d158d2a3e33b151db5f7a8 f7d206a96151bb37ffe5604a1f46d7cd8bcd01de 23f7d470efbbf44788818113c4673f8b682d4a18 953c887baa5d1cf8c26047cb9203f76452e1a0eb 44ef47e7146a88990ddf9d1728fe584c720f8ba3 734f06d094d5b34cfc7be1025a7c6086dfe0a8ec 20f10aa2cb5f5c7188b7986d6abaf062488cd85f 4d0fff14050e07cbc1cd8393192633b9dc78932e a725f84387c7c25605c5666baf895b000c428820 6fe24644bf72960488cd8ae66f9932126a695cea 08ec6e38e57932aa7281405fb558ebb31eb6d450 9a42a615158f7ed63606e9fe6c95714075bb18fe 7d38248293af61c807a5b8d782298b3ddabf2d94 91f972d55a1c209f288457bc40cf1a68c8f95e77 dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-riscv64-lp64d.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-riscv64-lp64d.so.1.usr-is-merged dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-riscv64-lp64d.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-riscv64-lp64d.so.1.usr-is-merged dpkg-shlibdeps: warning: debian/python3-rna/usr/lib/python3/dist-packages/RNA/_RNA.cpython-312-riscv64-linux-gnu.so contains an unresolvable reference to symbol PyExc_OverflowError: it's probably a plugin dpkg-shlibdeps: warning: 110 other similar warnings have been skipped (use -v to see them all) dh_installdeb -a dh_gencontrol -a dpkg-gencontrol: warning: Depends field of package librna-perl: substitution variable ${shlibs:Depends} used, but is not defined dh_md5sums -a dh_builddeb -a INFO: pkgstriptranslations version 154 INFO: pkgstriptranslations version 154 INFO: pkgstriptranslations version 154 pkgstriptranslations: processing python3-rna (in debian/python3-rna); do_strip: , oemstrip: pkgstriptranslations: processing librna-perl (in debian/librna-perl); do_strip: , oemstrip: pkgstriptranslations: processing vienna-rna (in debian/vienna-rna); do_strip: , oemstrip: pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com pkgstripfiles: processing control file: debian/python3-rna/DEBIAN/control, package python3-rna, directory debian/python3-rna INFO: pkgstripfiles: waiting for lock (python3-rna) ... pkgstripfiles: processing control file: debian/librna-perl/DEBIAN/control, package librna-perl, directory debian/librna-perl pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com INFO: pkgstripfiles: waiting for lock (librna-perl) ... INFO: pkgstripfiles: waiting for lock (python3-rna) ... INFO: pkgstripfiles: waiting for lock (librna-perl) ... INFO: pkgstripfiles: waiting for lock (python3-rna) ... INFO: pkgstripfiles: waiting for lock (librna-perl) ... INFO: pkgstripfiles: waiting for lock (python3-rna) ... INFO: pkgstripfiles: waiting for lock (librna-perl) ... INFO: pkgstripfiles: waiting for lock (python3-rna) ... INFO: pkgstripfiles: waiting for lock (librna-perl) ... pkgstripfiles: processing control file: debian/vienna-rna/DEBIAN/control, package vienna-rna, directory debian/vienna-rna INFO: pkgstripfiles: waiting for lock (python3-rna) ... INFO: pkgstripfiles: waiting for lock (librna-perl) ... pkgstripfiles: Running PNG optimization (using 4 cpus) for package vienna-rna ... INFO: pkgstripfiles: waiting for lock (python3-rna) ... pkgstripfiles: No PNG files. dpkg-deb: building package 'vienna-rna' in '../vienna-rna_2.5.1+dfsg-1build3_riscv64.deb'. INFO: pkgstripfiles: waiting for lock (librna-perl) ... pkgstripfiles: Running PNG optimization (using 4 cpus) for package python3-rna ... INFO: pkgstripfiles: waiting for lock (librna-perl) ... pkgstripfiles: No PNG files. dpkg-deb: building package 'python3-rna' in '../python3-rna_2.5.1+dfsg-1build3_riscv64.deb'. pkgstripfiles: Running PNG optimization (using 4 cpus) for package librna-perl ... pkgstripfiles: No PNG files. dpkg-deb: building package 'librna-perl' in '../librna-perl_2.5.1+dfsg-1build3_riscv64.deb'. INFO: pkgstriptranslations version 154 pkgstriptranslations: processing python3-rna-dbgsym (in debian/.debhelper/python3-rna/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com pkgstripfiles: processing control file: debian/.debhelper/python3-rna/dbgsym-root/DEBIAN/control, package python3-rna-dbgsym, directory debian/.debhelper/python3-rna/dbgsym-root dpkg-deb: building package 'python3-rna-dbgsym' in 'debian/.debhelper/scratch-space/build-python3-rna/python3-rna-dbgsym_2.5.1+dfsg-1build3_riscv64.deb'. Renaming python3-rna-dbgsym_2.5.1+dfsg-1build3_riscv64.deb to python3-rna-dbgsym_2.5.1+dfsg-1build3_riscv64.ddeb INFO: pkgstriptranslations version 154 pkgstriptranslations: processing vienna-rna-dbgsym (in debian/.debhelper/vienna-rna/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Not overriding Maintainer for domain lists.ubuntu.com pkgstripfiles: processing control file: debian/.debhelper/vienna-rna/dbgsym-root/DEBIAN/control, package vienna-rna-dbgsym, directory debian/.debhelper/vienna-rna/dbgsym-root dpkg-deb: building package 'vienna-rna-dbgsym' in 'debian/.debhelper/scratch-space/build-vienna-rna/vienna-rna-dbgsym_2.5.1+dfsg-1build3_riscv64.deb'. Renaming vienna-rna-dbgsym_2.5.1+dfsg-1build3_riscv64.deb to vienna-rna-dbgsym_2.5.1+dfsg-1build3_riscv64.ddeb dpkg-genbuildinfo --build=any -O../vienna-rna_2.5.1+dfsg-1build3_riscv64.buildinfo dpkg-genchanges --build=any -mLaunchpad Build Daemon -O../vienna-rna_2.5.1+dfsg-1build3_riscv64.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2024-04-03T15:19:47Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ vienna-rna_2.5.1+dfsg-1build3_riscv64.changes: ---------------------------------------------- Format: 1.8 Date: Mon, 01 Apr 2024 16:24:05 +1100 Source: vienna-rna Binary: librna-perl python3-rna vienna-rna Built-For-Profiles: noudeb Architecture: riscv64 Version: 2.5.1+dfsg-1build3 Distribution: noble-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: William Grant Description: librna-perl - ViennaRNA perl wrappers python3-rna - ViennaRNA Python wrappers vienna-rna - RNA sequence analysis Changes: vienna-rna (2.5.1+dfsg-1build3) noble; urgency=medium . * No-change rebuild for CVE-2024-3094 Checksums-Sha1: 26590acb767ff367549de07954383c5326c3ecef 49352 librna-perl_2.5.1+dfsg-1build3_riscv64.deb 1aed8a3dbca892affc227a96f9adc1f7bd0adf67 162084 python3-rna-dbgsym_2.5.1+dfsg-1build3_riscv64.ddeb ba603dd59e123c2d239229c97660fd7308d9343d 1207216 python3-rna_2.5.1+dfsg-1build3_riscv64.deb e502b94f063c7982dc4b377d2875ab1a41ea382e 420314 vienna-rna-dbgsym_2.5.1+dfsg-1build3_riscv64.ddeb 36d39143ca6d90a43b0f106923c042e5dc5e797b 14212 vienna-rna_2.5.1+dfsg-1build3_riscv64.buildinfo 08653faac9f1d27c97e3bd6bedbd9af27c411f00 2810134 vienna-rna_2.5.1+dfsg-1build3_riscv64.deb Checksums-Sha256: 2a5ce9706a813885c8414dc5a7460f65aa9fc3569bb5f5b30f265bd294489a87 49352 librna-perl_2.5.1+dfsg-1build3_riscv64.deb 997b4a0acf5bb972c9d84e430cdda246097a25b8c64d779426f193d6d82dd81b 162084 python3-rna-dbgsym_2.5.1+dfsg-1build3_riscv64.ddeb 824e26f37bb49c52cfc4a2256f614f3441ce218c479f6580cc04e2d3cd878188 1207216 python3-rna_2.5.1+dfsg-1build3_riscv64.deb d1efc1a168917545583b9e55667d0684ea00c30511b9502f2339c38cd2fecae6 420314 vienna-rna-dbgsym_2.5.1+dfsg-1build3_riscv64.ddeb 703cf1ad02c6b9d2cb83200318e116c1b5fdeb0e1836c803d89592bde3c41eb5 14212 vienna-rna_2.5.1+dfsg-1build3_riscv64.buildinfo 867289a37632ff82733cd8be9308fa1120b61f0a0cf27edd59ae8964f8920f05 2810134 vienna-rna_2.5.1+dfsg-1build3_riscv64.deb Files: 59cdb60efc5e00d8632464411d728702 49352 non-free/perl optional librna-perl_2.5.1+dfsg-1build3_riscv64.deb 9edd8debb4f785e24f4fe070c381444d 162084 non-free/debug optional python3-rna-dbgsym_2.5.1+dfsg-1build3_riscv64.ddeb 0c6e146d96c8c88d6ef7d9f5a7db3ec0 1207216 non-free/python optional python3-rna_2.5.1+dfsg-1build3_riscv64.deb 766e7feb5f02459836467bb2a320036d 420314 non-free/debug optional vienna-rna-dbgsym_2.5.1+dfsg-1build3_riscv64.ddeb 05233ed6e9c2e56da2cf238e6b5aae03 14212 non-free/science optional vienna-rna_2.5.1+dfsg-1build3_riscv64.buildinfo 1c5413ada239ef698a45d50264a5d28d 2810134 non-free/science optional vienna-rna_2.5.1+dfsg-1build3_riscv64.deb Original-Maintainer: Debian Med Packaging Team /<>/vienna-rna_2.5.1+dfsg-1build3_riscv64.changes.new could not be renamed to /<>/vienna-rna_2.5.1+dfsg-1build3_riscv64.changes: Illegal seek Distribution field may be wrong!!! +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: vienna-rna Binary: librna-perl python3-rna python3-rna-dbgsym vienna-rna vienna-rna-dbgsym Architecture: riscv64 Version: 2.5.1+dfsg-1build3 Checksums-Md5: 59cdb60efc5e00d8632464411d728702 49352 librna-perl_2.5.1+dfsg-1build3_riscv64.deb 9edd8debb4f785e24f4fe070c381444d 162084 python3-rna-dbgsym_2.5.1+dfsg-1build3_riscv64.ddeb 0c6e146d96c8c88d6ef7d9f5a7db3ec0 1207216 python3-rna_2.5.1+dfsg-1build3_riscv64.deb 766e7feb5f02459836467bb2a320036d 420314 vienna-rna-dbgsym_2.5.1+dfsg-1build3_riscv64.ddeb 1c5413ada239ef698a45d50264a5d28d 2810134 vienna-rna_2.5.1+dfsg-1build3_riscv64.deb Checksums-Sha1: 26590acb767ff367549de07954383c5326c3ecef 49352 librna-perl_2.5.1+dfsg-1build3_riscv64.deb 1aed8a3dbca892affc227a96f9adc1f7bd0adf67 162084 python3-rna-dbgsym_2.5.1+dfsg-1build3_riscv64.ddeb ba603dd59e123c2d239229c97660fd7308d9343d 1207216 python3-rna_2.5.1+dfsg-1build3_riscv64.deb e502b94f063c7982dc4b377d2875ab1a41ea382e 420314 vienna-rna-dbgsym_2.5.1+dfsg-1build3_riscv64.ddeb 08653faac9f1d27c97e3bd6bedbd9af27c411f00 2810134 vienna-rna_2.5.1+dfsg-1build3_riscv64.deb Checksums-Sha256: 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2.42-4ubuntu2), binutils-common (= 2.42-4ubuntu2), binutils-riscv64-linux-gnu (= 2.42-4ubuntu2), bsdextrautils (= 2.39.3-9ubuntu4), bsdutils (= 1:2.39.3-9ubuntu4), build-essential (= 12.10ubuntu1), bzip2 (= 1.0.8-5.1), coreutils (= 9.4-3ubuntu5), cpp (= 4:13.2.0-7ubuntu1), cpp-13 (= 13.2.0-23ubuntu3), cpp-13-riscv64-linux-gnu (= 13.2.0-23ubuntu3), cpp-riscv64-linux-gnu (= 4:13.2.0-7ubuntu1), cthreadpool-dev (= 0.0+git20231218.4eb5a69-1build1), dash (= 0.5.12-6ubuntu5), debconf (= 1.5.86), debhelper (= 13.14.1ubuntu5), debianutils (= 5.17build1), debugedit (= 1:5.0-5build1), dh-autoreconf (= 20), dh-python (= 6.20240401), dh-strip-nondeterminism (= 1.13.1-1), diffutils (= 1:3.10-1), doxygen (= 1.9.8+ds-2build5), dpkg (= 1.22.6ubuntu6), dpkg-dev (= 1.22.6ubuntu6), dwz (= 0.15-1build6), file (= 1:5.45-3build1), findutils (= 4.9.0-5), fontconfig (= 2.15.0-1.1ubuntu2), fontconfig-config (= 2.15.0-1.1ubuntu2), fonts-dejavu-core (= 2.37-8), fonts-dejavu-mono (= 2.37-8), fonts-lmodern (= 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1:3.1.2-2.1build1), libaudit1 (= 1:3.1.2-2.1build1), libavahi-client3 (= 0.8-13ubuntu5), libavahi-common-data (= 0.8-13ubuntu5), libavahi-common3 (= 0.8-13ubuntu5), libbinutils (= 2.42-4ubuntu2), libblas-dev (= 3.12.0-3), libblas3 (= 3.12.0-3), libblkid1 (= 2.39.3-9ubuntu4), libbrotli1 (= 1.1.0-2build2), libbsd0 (= 0.12.1-1build1), libbz2-1.0 (= 1.0.8-5.1), libc-bin (= 2.39-0ubuntu8), libc-dev-bin (= 2.39-0ubuntu8), libc6 (= 2.39-0ubuntu8), libc6-dev (= 2.39-0ubuntu8), libcairo2 (= 1.18.0-3), libcap-ng0 (= 0.8.4-2build2), libcap2 (= 1:2.66-5ubuntu1), libcc1-0 (= 14-20240330-1ubuntu2), libcdt5 (= 2.42.2-9build1), libcgraph6 (= 2.42.2-9build1), libclang-cpp18 (= 1:18.1.2-1ubuntu2), libclang1-18 (= 1:18.1.2-1ubuntu2), libcom-err2 (= 1.47.0-2.4~exp1ubuntu3), libcommons-logging-java (= 1.3.0-1ubuntu1), libcommons-parent-java (= 56-1), libcrypt-dev (= 1:4.4.36-4), libcrypt1 (= 1:4.4.36-4), libctf-nobfd0 (= 2.42-4ubuntu2), libctf0 (= 2.42-4ubuntu2), libcups2t64 (= 2.4.7-1.2ubuntu3), libdatrie1 (= 0.2.13-3), libdb5.3t64 (= 5.3.28+dfsg2-6build1), libdbus-1-3 (= 1.14.10-4ubuntu3), libdebconfclient0 (= 0.271ubuntu3), libdebhelper-perl (= 13.14.1ubuntu5), libdeflate0 (= 1.19-1), libdlib-data (= 19.24+dfsg-1.1build1), libdlib-dev (= 19.24+dfsg-1.1), libdlib19.1t64 (= 19.24+dfsg-1.1), libdpkg-perl (= 1.22.6ubuntu6), libdrm-amdgpu1 (= 2.4.120-2), libdrm-common (= 2.4.120-2), libdrm-nouveau2 (= 2.4.120-2), libdrm-radeon1 (= 2.4.120-2), libdrm2 (= 2.4.120-2), libdw1t64 (= 0.190-1.1build3), libedit2 (= 3.1-20230828-1), libelf1t64 (= 0.190-1.1build3), libexpat1 (= 2.6.1-2build1), libexpat1-dev (= 2.6.1-2build1), libffi8 (= 3.4.6-1), libfile-stripnondeterminism-perl (= 1.13.1-1), libfmt9 (= 9.1.0+ds1-2), libfontbox-java (= 1:1.8.16-5), libfontconfig1 (= 2.15.0-1.1ubuntu2), libfontenc1 (= 1:1.1.8-1build1), libfreetype6 (= 2.13.2+dfsg-1build3), libfribidi0 (= 1.0.13-3), libgcc-13-dev (= 13.2.0-23ubuntu3), libgcc-s1 (= 14-20240330-1ubuntu2), libgcrypt20 (= 1.10.3-2), libgd3 (= 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3.9.1-2.2build1), libhwloc15 (= 2.10.0-1), libice6 (= 2:1.0.10-1build2), libicu74 (= 74.2-1ubuntu1), libidn12 (= 1.42-1), libidn2-0 (= 2.3.7-2), libijs-0.35 (= 0.35-15.1), libisl23 (= 0.26-3), libjansson4 (= 2.14-2build2), libjbig0 (= 2.1-6.1ubuntu1), libjbig2dec0 (= 0.20-1build3), libjpeg-turbo8 (= 2.1.5-2ubuntu1), libjpeg8 (= 8c-2ubuntu11), libjs-jquery (= 3.6.1+dfsg+~3.5.14-1), libjs-sphinxdoc (= 7.2.6-6), libjs-underscore (= 1.13.4~dfsg+~1.11.4-3), libk5crypto3 (= 1.20.1-6ubuntu2), libkeyutils1 (= 1.6.3-3), libkpathsea6 (= 2023.20230311.66589-9build3), libkrb5-3 (= 1.20.1-6ubuntu2), libkrb5support0 (= 1.20.1-6ubuntu2), liblab-gamut1 (= 2.42.2-9build1), liblapack-dev (= 3.12.0-3), liblapack3 (= 3.12.0-3), liblerc4 (= 4.0.0+ds-4ubuntu1), libllvm17t64 (= 1:17.0.6-9build2), libllvm18 (= 1:18.1.2-1ubuntu2), liblocale-gettext-perl (= 1.07-6ubuntu5), libltdl7 (= 2.4.7-7), liblz4-1 (= 1.9.4-1), liblzma5 (= 5.6.1+really5.4.5-1), libmagic-mgc (= 1:5.45-3build1), libmagic1t64 (= 1:5.45-3build1), libmd0 (= 1.1.0-2), libmount1 (= 2.39.3-9ubuntu4), libmpc3 (= 1.3.1-1), libmpfr-dev (= 4.2.1-1), libmpfr6 (= 4.2.1-1), libncursesw6 (= 6.4+20240113-1ubuntu1), libnettle8t64 (= 3.9.1-2.2build1), libopencv-core-dev (= 4.6.0+dfsg-13.1build2), libopencv-core406t64 (= 4.6.0+dfsg-13.1build2), libopenjp2-7 (= 2.5.0-2build3), libp11-kit0 (= 0.25.3-4ubuntu1), libpam-modules (= 1.5.3-5ubuntu4), libpam-modules-bin (= 1.5.3-5ubuntu4), libpam-runtime (= 1.5.3-5ubuntu4), libpam0g (= 1.5.3-5ubuntu4), libpango-1.0-0 (= 1.52.1+ds-1build1), libpangocairo-1.0-0 (= 1.52.1+ds-1build1), libpangoft2-1.0-0 (= 1.52.1+ds-1build1), libpaper-utils (= 1.1.29), libpaper1 (= 1.1.29), libpathplan4 (= 2.42.2-9build1), libpcre2-8-0 (= 10.42-4ubuntu1), libpdfbox-java (= 1:1.8.16-5), libperl5.38t64 (= 5.38.2-3.2build1), libpipeline1 (= 1.5.7-2), libpixman-1-0 (= 0.42.2-1), libpkgconf3 (= 1.8.1-2), libpng-dev (= 1.6.43-5build1), libpng16-16t64 (= 1.6.43-5build1), libpotrace0 (= 1.16-2), libptexenc1 (= 2023.20230311.66589-9build3), libpthread-stubs0-dev (= 0.4-1build2), libpython3-dev (= 3.12.2-0ubuntu2), libpython3-stdlib (= 3.12.2-0ubuntu2), libpython3.12-dev (= 3.12.2-5ubuntu3), libpython3.12-minimal (= 3.12.2-5ubuntu3), libpython3.12-stdlib (= 3.12.2-5ubuntu3), libpython3.12t64 (= 3.12.2-5ubuntu3), libreadline8t64 (= 8.2-4build1), libselinux1 (= 3.5-2ubuntu2), libsensors-config (= 1:3.6.0-9build1), libsensors5 (= 1:3.6.0-9build1), libsframe1 (= 2.42-4ubuntu2), libsharpyuv0 (= 1.3.2-0.4build3), libsm6 (= 2:1.2.3-1build2), libsmartcols1 (= 2.39.3-9ubuntu4), libsqlite3-0 (= 3.45.1-1ubuntu2), libsqlite3-dev (= 3.45.1-1ubuntu2), libssl3t64 (= 3.0.13-0ubuntu3), libstdc++-13-dev (= 13.2.0-23ubuntu3), libstdc++6 (= 14-20240330-1ubuntu2), libsub-override-perl (= 0.10-1), libsvm-dev (= 3.24+ds-6ubuntu2), libsvm3 (= 3.24+ds-6ubuntu2), libsynctex2 (= 2023.20230311.66589-9build3), libsystemd0 (= 255.4-1ubuntu6), libtasn1-6 (= 4.19.0-3), libtbb-dev (= 2021.11.0-2ubuntu2), libtbb12 (= 2021.11.0-2ubuntu2), libtbbbind-2-5 (= 2021.11.0-2ubuntu2), libtbbmalloc2 (= 2021.11.0-2ubuntu2), libteckit0 (= 2.5.12+ds1-1), libtexlua53-5 (= 2023.20230311.66589-9build3), libtext-unidecode-perl (= 1.30-3), libthai-data (= 0.1.29-2), libthai0 (= 0.1.29-2), libtiff6 (= 4.5.1+git230720-4ubuntu2), libtinfo6 (= 6.4+20240113-1ubuntu1), libtool (= 2.4.7-7), libubsan1 (= 14-20240330-1ubuntu2), libuchardet0 (= 0.0.8-1), libudev1 (= 255.4-1ubuntu6), libunistring5 (= 1.1-2), libuuid1 (= 2.39.3-9ubuntu4), libvulkan1 (= 1.3.275.0-1), libwebp7 (= 1.3.2-0.4build3), libx11-6 (= 2:1.8.7-1), libx11-data (= 2:1.8.7-1), libx11-dev (= 2:1.8.7-1), libx11-xcb1 (= 2:1.8.7-1), libxapian30 (= 1.4.22-1), libxau-dev (= 1:1.0.9-1build5), libxau6 (= 1:1.0.9-1build5), libxaw7 (= 2:1.0.14-1build2), libxcb-dri2-0 (= 1.15-1), libxcb-dri3-0 (= 1.15-1), libxcb-glx0 (= 1.15-1), libxcb-present0 (= 1.15-1), libxcb-randr0 (= 1.15-1), libxcb-render0 (= 1.15-1), libxcb-shm0 (= 1.15-1), libxcb-sync1 (= 1.15-1), libxcb-xfixes0 (= 1.15-1), libxcb1 (= 1.15-1), libxcb1-dev (= 1.15-1), libxdmcp-dev (= 1:1.1.3-0ubuntu5), libxdmcp6 (= 1:1.1.3-0ubuntu5), libxext6 (= 2:1.3.4-1build1), libxfixes3 (= 1:6.0.0-2), libxi6 (= 2:1.8.1-1), libxml-libxml-perl (= 2.0207+dfsg+really+2.0134-1build4), libxml-namespacesupport-perl (= 1.12-2), libxml-sax-base-perl (= 1.09-3), libxml-sax-perl (= 1.02+dfsg-3), libxml2 (= 2.9.14+dfsg-1.3ubuntu3), libxmu6 (= 2:1.1.3-3build2), libxpm4 (= 1:3.5.17-1build2), libxrender1 (= 1:0.9.10-1.1), libxshmfence1 (= 1.3-1build4), libxt6t64 (= 1:1.2.1-1.2build1), libxxf86vm1 (= 1:1.1.4-1build3), libzstd1 (= 1.5.5+dfsg2-2), libzzip-0-13t64 (= 0.13.72+dfsg.1-1.2build1), linux-libc-dev (= 6.8.0-20.20), login (= 1:4.13+dfsg1-4ubuntu1), lto-disabled-list (= 47), m4 (= 1.4.19-4), make (= 4.3-4.1build1), man-db (= 2.12.0-4build1), mawk (= 1.3.4.20240123-1), media-types (= 10.1.0), ncurses-base (= 6.4+20240113-1ubuntu1), ncurses-bin (= 6.4+20240113-1ubuntu1), netbase (= 6.4), patch (= 2.7.6-7build2), perl (= 5.38.2-3.2build1), perl-base (= 5.38.2-3.2build1), perl-doc (= 5.38.2-3.2build1), perl-modules-5.38 (= 5.38.2-3.2build1), pkg-config (= 1.8.1-2), pkgconf (= 1.8.1-2), pkgconf-bin (= 1.8.1-2), po-debconf (= 1.0.21+nmu1), poppler-data (= 0.4.12-1), preview-latex-style (= 13.2-1), pybind11-dev (= 2.11.1-2), python3 (= 3.12.2-0ubuntu2), python3-dev (= 3.12.2-0ubuntu2), python3-minimal (= 3.12.2-0ubuntu2), python3-pkg-resources (= 68.1.2-2ubuntu1), python3-setuptools (= 68.1.2-2ubuntu1), python3.12 (= 3.12.2-5ubuntu3), python3.12-dev (= 3.12.2-5ubuntu3), python3.12-minimal (= 3.12.2-5ubuntu3), readline-common (= 8.2-4build1), rpcsvc-proto (= 1.4.2-0ubuntu6), sed (= 4.9-2), sensible-utils (= 0.0.22), swig (= 4.2.0-2ubuntu1), sysvinit-utils (= 3.08-6ubuntu2), t1utils (= 1.41-4build2), tar (= 1.35+dfsg-3), tex-common (= 6.18), texinfo (= 7.1-3build2), texinfo-lib (= 7.1-3build2), texlive-base (= 2023.20240207-1), texlive-binaries (= 2023.20230311.66589-9build3), texlive-latex-base (= 2023.20240207-1), texlive-latex-extra (= 2023.20240207-1), texlive-latex-recommended (= 2023.20240207-1), texlive-pictures (= 2023.20240207-1), tzdata (= 2024a-1ubuntu1), ucf (= 3.0043+nmu1), util-linux (= 2.39.3-9ubuntu4), x11-common (= 1:7.7+23ubuntu2), x11proto-dev (= 2023.2-1), xdg-utils (= 1.1.3-4.1ubuntu3), xfonts-encodings (= 1:1.0.5-0ubuntu2), xfonts-utils (= 1:7.7+6build2), xorg-sgml-doctools (= 1:1.11-1.1), xtrans-dev (= 1.4.0-1), xxd (= 2:9.1.0016-1ubuntu7), xz-utils (= 5.6.1+really5.4.5-1), zlib1g (= 1:1.3.dfsg-3.1ubuntu2), zlib1g-dev (= 1:1.3.dfsg-3.1ubuntu2) Environment: DEB_BUILD_OPTIONS="nocheck parallel=4" DEB_BUILD_PROFILES="noudeb" LANG="C.UTF-8" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1711949045" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ librna-perl_2.5.1+dfsg-1build3_riscv64.deb ------------------------------------------ new Debian package, version 2.0. size 49352 bytes: control archive=826 bytes. 608 bytes, 17 lines control 597 bytes, 9 lines md5sums Package: librna-perl Source: vienna-rna Version: 2.5.1+dfsg-1build3 Architecture: riscv64 Maintainer: Ubuntu Developers Installed-Size: 251 Depends: perl:any Section: non-free/perl Priority: optional Homepage: https://www.tbi.univie.ac.at/RNA/ Description: ViennaRNA perl wrappers Perl wrappers above ViennaRNA library. . The Vienna RNA Package consists of a C code library and several stand-alone programs for the prediction and comparison of RNA secondary structures Original-Maintainer: Debian Med Packaging Team drwxr-xr-x root/root 0 2024-04-01 05:24 ./ drwxr-xr-x root/root 0 2024-04-01 05:24 ./usr/ drwxr-xr-x root/root 0 2024-04-01 05:24 ./usr/share/ drwxr-xr-x root/root 0 2024-04-01 05:24 ./usr/share/doc/ drwxr-xr-x root/root 0 2024-04-01 05:24 ./usr/share/doc/librna-perl/ -rw-r--r-- root/root 1349 2024-04-01 05:24 ./usr/share/doc/librna-perl/changelog.Debian.gz -rw-r--r-- root/root 7117 2023-02-10 06:19 ./usr/share/doc/librna-perl/copyright drwxr-xr-x root/root 0 2024-04-01 05:24 ./usr/share/perl5/ -rw-r--r-- root/root 109828 2024-04-01 05:24 ./usr/share/perl5/RNA.pm drwxr-xr-x root/root 0 2024-04-01 05:24 ./usr/share/perl5/RNA/ -rw-r--r-- root/root 14079 2024-04-01 05:24 ./usr/share/perl5/RNA/Benchmark.pm -rw-r--r-- root/root 39458 2024-04-01 05:24 ./usr/share/perl5/RNA/Design.pm -rw-r--r-- root/root 4614 2024-04-01 05:24 ./usr/share/perl5/RNA/Files.pm -rw-r--r-- root/root 57391 2024-04-01 05:24 ./usr/share/perl5/RNA/Params.pm -rw-r--r-- root/root 1818 2024-04-01 05:24 ./usr/share/perl5/RNA/Reliability.pm -rw-r--r-- root/root 8342 2024-04-01 05:24 ./usr/share/perl5/RNA/Utils.pm python3-rna_2.5.1+dfsg-1build3_riscv64.deb ------------------------------------------ new Debian package, version 2.0. size 1207216 bytes: control archive=1106 bytes. 836 bytes, 17 lines control 336 bytes, 4 lines md5sums 273 bytes, 12 lines * postinst #!/bin/sh 386 bytes, 12 lines * prerm #!/bin/sh Package: python3-rna Source: vienna-rna Version: 2.5.1+dfsg-1build3 Architecture: riscv64 Maintainer: Ubuntu Developers Installed-Size: 7786 Depends: python3 (<< 3.13), python3 (>= 3.12~), python3:any, libc6 (>= 2.38), libdlib19.1t64 (>= 19.24+dfsg), libgcc-s1 (>= 3.3.1), libgomp1 (>= 4.9), libgsl27 (>= 2.7.1), libgslcblas0 (>= 2.7.1), libmpfr6 (>= 3.1.3), libstdc++6 (>= 13.1) Section: non-free/python Priority: optional Homepage: https://www.tbi.univie.ac.at/RNA/ Description: ViennaRNA Python wrappers Python wrappers above ViennaRNA library. . The Vienna RNA Package consists of a C code library and several stand-alone programs for the prediction and comparison of RNA secondary structures Original-Maintainer: Debian Med Packaging Team drwxr-xr-x root/root 0 2024-04-01 05:24 ./ drwxr-xr-x root/root 0 2024-04-01 05:24 ./usr/ drwxr-xr-x root/root 0 2024-04-01 05:24 ./usr/lib/ drwxr-xr-x root/root 0 2024-04-01 05:24 ./usr/lib/python3/ drwxr-xr-x root/root 0 2024-04-01 05:24 ./usr/lib/python3/dist-packages/ drwxr-xr-x root/root 0 2024-04-01 05:24 ./usr/lib/python3/dist-packages/RNA/ -rw-r--r-- root/root 7816424 2024-04-01 05:24 ./usr/lib/python3/dist-packages/RNA/_RNA.cpython-312-riscv64-linux-gnu.so -rw-r--r-- root/root 133330 2024-04-01 05:24 ./usr/lib/python3/dist-packages/RNA/__init__.py drwxr-xr-x root/root 0 2024-04-01 05:24 ./usr/share/ drwxr-xr-x root/root 0 2024-04-01 05:24 ./usr/share/doc/ drwxr-xr-x root/root 0 2024-04-01 05:24 ./usr/share/doc/python3-rna/ -rw-r--r-- root/root 1345 2024-04-01 05:24 ./usr/share/doc/python3-rna/changelog.Debian.gz -rw-r--r-- root/root 7117 2023-02-10 06:19 ./usr/share/doc/python3-rna/copyright vienna-rna_2.5.1+dfsg-1build3_riscv64.deb ----------------------------------------- new Debian package, version 2.0. size 2810134 bytes: control archive=3054 bytes. 1881 bytes, 35 lines control 4497 bytes, 74 lines md5sums Package: vienna-rna Version: 2.5.1+dfsg-1build3 Architecture: riscv64 Maintainer: Ubuntu Developers Installed-Size: 87462 Depends: libc6 (>= 2.38), libdlib19.1t64 (>= 19.24+dfsg), libgcc-s1 (>= 3.4), libgomp1 (>= 4.9), libgsl27 (>= 2.7.1), libgslcblas0 (>= 2.7.1), liblapack3 | liblapack.so.3, libmpfr6 (>= 3.1.3), libstdc++6 (>= 13.1) Recommends: readseq Section: non-free/science Priority: optional Homepage: https://www.tbi.univie.ac.at/RNA/ Description: RNA sequence analysis The Vienna RNA Package consists of a C code library and several stand-alone programs for the prediction and comparison of RNA secondary structures. It is developed and maintained by the group of Ivo Hofacker in Vienna. . RNA secondary structure prediction through energy minimization is the most used function in the package. It provides three kinds of dynamic programming algorithms for structure prediction: * the minimum free energy algorithm of (Zuker & Stiegler 1981) which yields a single optimal structure, * the partition function algorithm of (McCaskill 1990) which calculates base pair probabilities in the thermodynamic ensemble, and the suboptimal folding algorithm of (Wuchty et.al 1999) which generates all suboptimal structures within a given energy range of the optimal energy. . For secondary structure comparison, the package contains several measures of distance (dissimilarities) using either string alignment or tree-editing (Shapiro & Zhang 1990). Finally, is provided an algorithm to design sequences with a predefined structure (inverse folding). The RNAforester package is a tool for aligning RNA secondary structures and it's user interface integrates to those of the tools of the Vienna RNA package. 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./usr/share/man/man1/dpzoom.1.gz -rw-r--r-- root/root 405 2024-04-01 05:24 ./usr/share/man/man1/popt.1.gz +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: riscv64 Build Type: any Build-Space: 712552 Build-Time: 6003 Distribution: noble-proposed Host Architecture: riscv64 Install-Time: 2352 Job: vienna-rna_2.5.1+dfsg-1build3.dsc Machine Architecture: riscv64 Package: vienna-rna Package-Time: 8409 Source-Version: 2.5.1+dfsg-1build3 Space: 712552 Status: successful Version: 2.5.1+dfsg-1build3 -------------------------------------------------------------------------------- Finished at 2024-04-03T15:19:47Z Build needed 02:20:09, 712552k disk space RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=noble --arch=riscv64 PACKAGEBUILD-27999132 Scanning for processes to kill in build PACKAGEBUILD-27999132