https://launchpad.net/ubuntu/+source/bamtools/2.5.2+dfsg-5/+build/27260538 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux bos03-riscv64-049 5.19.0-1021-generic #23~22.04.1-Ubuntu SMP Thu Jun 22 12:49:35 UTC 2023 riscv64 Buildd toolchain package versions: launchpad-buildd_235~645~ubuntu22.04.1 python3-lpbuildd_235~645~ubuntu22.04.1 sbuild_0.81.2ubuntu6 git-build-recipe_0.3.6 git_1:2.34.1-1ubuntu1.10 dpkg-dev_1.21.1ubuntu2.2 python3-debian_0.1.43ubuntu1.1. Syncing the system clock with the buildd NTP service... 15 Dec 23:16:26 ntpdate[2281]: adjust time server 10.211.37.1 offset -0.001347 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=noble --arch=riscv64 PACKAGEBUILD-27260538 --image-type chroot /home/buildd/filecache-default/20a3246b7a16d5658607d7f37229fcda30a33651 Creating target for build PACKAGEBUILD-27260538 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=noble --arch=riscv64 PACKAGEBUILD-27260538 Starting target for build PACKAGEBUILD-27260538 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=noble --arch=riscv64 PACKAGEBUILD-27260538 'deb http://ftpmaster.internal/ubuntu noble main universe' 'deb http://ftpmaster.internal/ubuntu noble-security main universe' 'deb http://ftpmaster.internal/ubuntu noble-updates main universe' 'deb http://ftpmaster.internal/ubuntu noble-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-27260538 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=noble --arch=riscv64 PACKAGEBUILD-27260538 Updating target for build PACKAGEBUILD-27260538 Get:1 http://ftpmaster.internal/ubuntu noble InRelease [240 kB] Get:2 http://ftpmaster.internal/ubuntu noble-security InRelease [74.9 kB] Get:3 http://ftpmaster.internal/ubuntu noble-updates InRelease [74.9 kB] Get:4 http://ftpmaster.internal/ubuntu noble-proposed InRelease [102 kB] Get:5 http://ftpmaster.internal/ubuntu noble/main riscv64 Packages [1341 kB] Get:6 http://ftpmaster.internal/ubuntu noble/main Translation-en [517 kB] Get:7 http://ftpmaster.internal/ubuntu noble/universe riscv64 Packages [14.7 MB] Get:8 http://ftpmaster.internal/ubuntu noble/universe Translation-en [6026 kB] Get:9 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 Packages [45.3 kB] Get:10 http://ftpmaster.internal/ubuntu noble-proposed/main Translation-en [34.8 kB] Get:11 http://ftpmaster.internal/ubuntu noble-proposed/universe riscv64 Packages [1013 kB] Get:12 http://ftpmaster.internal/ubuntu noble-proposed/universe Translation-en [362 kB] Fetched 24.5 MB in 25s (970 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following package was automatically installed and is no longer required: libunistring2 Use 'sudo apt autoremove' to remove it. The following NEW packages will be installed: libunistring5 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 coreutils cpp cpp-13 debianutils diffutils dpkg dpkg-dev fakeroot g++ g++-13 gcc gcc-13 gcc-13-base grep init init-system-helpers krb5-locales libapparmor1 libapt-pkg6.0 libargon2-1 libasan8 libatomic1 libaudit-common libaudit1 libbinutils libblkid1 libc-bin libc-dev-bin libc6 libc6-dev libcap-ng0 libcc1-0 libcryptsetup12 libctf-nobfd0 libctf0 libdb5.3 libdebconfclient0 libdpkg-perl libfakeroot libfdisk1 libffi8 libgcc-13-dev libgcc-s1 libgdbm-compat4 libgdbm6 libgnutls30 libgomp1 libgpg-error-l10n libgpg-error0 libgssapi-krb5-2 libidn2-0 libk5crypto3 libkmod2 libkrb5-3 libkrb5support0 liblzma5 libmount1 libncursesw6 libnsl-dev libnsl2 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpcre2-8-0 libperl5.36 libpng16-16 libproc2-0 libreadline8 libseccomp2 libselinux1 libsemanage-common libsemanage2 libsepol2 libsframe1 libsmartcols1 libsqlite3-0 libssl3 libstdc++-13-dev libstdc++6 libsystemd-shared libsystemd0 libtinfo6 libtirpc-common libtirpc-dev libtirpc3 libudev1 libuuid1 libxxhash0 libzstd1 linux-libc-dev login lto-disabled-list mawk mount ncurses-base ncurses-bin openssl optipng passwd perl perl-base perl-modules-5.36 pinentry-curses procps readline-common systemd systemd-dev systemd-sysv sysvinit-utils tar ubuntu-keyring util-linux uuid-runtime xz-utils zlib1g 128 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 106 MB of archives. After this operation, 7681 kB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu noble/main riscv64 libnsl-dev riscv64 1.3.0-3 [135 kB] Get:2 http://ftpmaster.internal/ubuntu noble/main riscv64 libc6-dev riscv64 2.38-3ubuntu1 [3401 kB] Get:3 http://ftpmaster.internal/ubuntu noble/main riscv64 libc-dev-bin riscv64 2.38-3ubuntu1 [19.2 kB] Get:4 http://ftpmaster.internal/ubuntu noble/main riscv64 libtirpc-common all 1.3.4+ds-1 [7920 B] Get:5 http://ftpmaster.internal/ubuntu noble/main riscv64 libtirpc-dev riscv64 1.3.4+ds-1 [344 kB] Get:6 http://ftpmaster.internal/ubuntu noble/main riscv64 libgssapi-krb5-2 riscv64 1.20.1-5build1 [148 kB] Get:7 http://ftpmaster.internal/ubuntu noble/main riscv64 libkrb5-3 riscv64 1.20.1-5build1 [377 kB] Get:8 http://ftpmaster.internal/ubuntu noble/main riscv64 libk5crypto3 riscv64 1.20.1-5build1 [106 kB] Get:9 http://ftpmaster.internal/ubuntu noble/main riscv64 libkrb5support0 riscv64 1.20.1-5build1 [35.9 kB] Get:10 http://ftpmaster.internal/ubuntu noble/main riscv64 libssl3 riscv64 3.0.10-1ubuntu3 [1693 kB] Get:11 http://ftpmaster.internal/ubuntu noble/main riscv64 libtirpc3 riscv64 1.3.4+ds-1 [88.4 kB] Get:12 http://ftpmaster.internal/ubuntu noble/main riscv64 libnsl2 riscv64 1.3.0-3 [42.0 kB] Get:13 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 linux-libc-dev riscv64 6.6.0-14.14 [1550 kB] Get:14 http://ftpmaster.internal/ubuntu noble/main riscv64 libcc1-0 riscv64 13.2.0-8ubuntu1 [45.3 kB] Get:15 http://ftpmaster.internal/ubuntu noble/main riscv64 libctf0 riscv64 2.41.50.20231214-1ubuntu1 [85.6 kB] Get:16 http://ftpmaster.internal/ubuntu noble/main riscv64 libctf-nobfd0 riscv64 2.41.50.20231214-1ubuntu1 [89.4 kB] Get:17 http://ftpmaster.internal/ubuntu noble/main riscv64 binutils-riscv64-linux-gnu riscv64 2.41.50.20231214-1ubuntu1 [918 kB] Get:18 http://ftpmaster.internal/ubuntu noble/main riscv64 libbinutils riscv64 2.41.50.20231214-1ubuntu1 [490 kB] Get:19 http://ftpmaster.internal/ubuntu noble/main riscv64 binutils-common riscv64 2.41.50.20231214-1ubuntu1 [223 kB] Get:20 http://ftpmaster.internal/ubuntu noble/main riscv64 binutils riscv64 2.41.50.20231214-1ubuntu1 [3000 B] Get:21 http://ftpmaster.internal/ubuntu noble/main riscv64 gcc-13-base riscv64 13.2.0-8ubuntu1 [44.8 kB] Get:22 http://ftpmaster.internal/ubuntu noble/main riscv64 libgcc-s1 riscv64 13.2.0-8ubuntu1 [57.1 kB] Get:23 http://ftpmaster.internal/ubuntu noble/main riscv64 libgomp1 riscv64 13.2.0-8ubuntu1 [140 kB] Get:24 http://ftpmaster.internal/ubuntu noble/main riscv64 libatomic1 riscv64 13.2.0-8ubuntu1 [9498 B] Get:25 http://ftpmaster.internal/ubuntu noble/main riscv64 libasan8 riscv64 13.2.0-8ubuntu1 [2506 kB] Get:26 http://ftpmaster.internal/ubuntu noble/main riscv64 g++-13 riscv64 13.2.0-8ubuntu1 [11.9 MB] Get:27 http://ftpmaster.internal/ubuntu noble/main riscv64 libstdc++-13-dev riscv64 13.2.0-8ubuntu1 [5455 kB] Get:28 http://ftpmaster.internal/ubuntu noble/main riscv64 libgcc-13-dev riscv64 13.2.0-8ubuntu1 [3123 kB] Get:29 http://ftpmaster.internal/ubuntu noble/main riscv64 gcc-13 riscv64 13.2.0-8ubuntu1 [20.8 MB] Get:30 http://ftpmaster.internal/ubuntu noble/main riscv64 cpp-13 riscv64 13.2.0-8ubuntu1 [10.5 MB] Get:31 http://ftpmaster.internal/ubuntu noble/main riscv64 libstdc++6 riscv64 13.2.0-8ubuntu1 [780 kB] Get:32 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 zlib1g riscv64 1:1.3.dfsg-3ubuntu1 [61.1 kB] Get:33 http://ftpmaster.internal/ubuntu noble/main riscv64 libsframe1 riscv64 2.41.50.20231214-1ubuntu1 [14.4 kB] Get:34 http://ftpmaster.internal/ubuntu noble/main riscv64 libzstd1 riscv64 1.5.5+dfsg2-2 [349 kB] Get:35 http://ftpmaster.internal/ubuntu noble/main riscv64 libc6 riscv64 2.38-3ubuntu1 [2742 kB] Get:36 http://ftpmaster.internal/ubuntu noble/main riscv64 base-files riscv64 13ubuntu5 [73.4 kB] Get:37 http://ftpmaster.internal/ubuntu noble/main riscv64 debianutils riscv64 5.14 [88.8 kB] Get:38 http://ftpmaster.internal/ubuntu noble/main riscv64 bash riscv64 5.2.21-2ubuntu1 [735 kB] Get:39 http://ftpmaster.internal/ubuntu noble/main riscv64 bsdutils riscv64 1:2.39.2-6ubuntu1 [113 kB] Get:40 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 coreutils riscv64 9.4-2ubuntu1 [1471 kB] Get:41 http://ftpmaster.internal/ubuntu noble/main riscv64 diffutils riscv64 1:3.10-1 [180 kB] Get:42 http://ftpmaster.internal/ubuntu noble/main riscv64 liblzma5 riscv64 5.4.5-0.1 [128 kB] Get:43 http://ftpmaster.internal/ubuntu noble/main riscv64 libapparmor1 riscv64 4.0.0~alpha2-0ubuntu7 [50.0 kB] Get:44 http://ftpmaster.internal/ubuntu noble/main riscv64 libaudit-common all 1:3.1.2-1 [5512 B] Get:45 http://ftpmaster.internal/ubuntu noble/main riscv64 libcap-ng0 riscv64 0.8.3-3 [15.2 kB] Get:46 http://ftpmaster.internal/ubuntu noble/main riscv64 libaudit1 riscv64 1:3.1.2-1 [47.5 kB] Get:47 http://ftpmaster.internal/ubuntu noble/main riscv64 libblkid1 riscv64 2.39.2-6ubuntu1 [199 kB] Get:48 http://ftpmaster.internal/ubuntu noble/main riscv64 libkmod2 riscv64 30+20230601-2ubuntu1 [52.6 kB] Get:49 http://ftpmaster.internal/ubuntu noble/main riscv64 libpcre2-8-0 riscv64 10.42-4ubuntu1 [149 kB] Get:50 http://ftpmaster.internal/ubuntu noble/main riscv64 libselinux1 riscv64 3.5-1build2 [83.2 kB] Get:51 http://ftpmaster.internal/ubuntu noble/main riscv64 libmount1 riscv64 2.39.2-6ubuntu1 [207 kB] Get:52 http://ftpmaster.internal/ubuntu noble/main riscv64 libpam0g riscv64 1.5.2-9.1ubuntu1 [65.9 kB] Get:53 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libseccomp2 riscv64 2.5.4-2ubuntu1 [51.5 kB] Get:54 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 systemd-sysv riscv64 255-1ubuntu1 [11.7 kB] Get:55 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 systemd-dev all 255-1ubuntu1 [98.5 kB] Get:56 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 systemd riscv64 255-1ubuntu1 [3565 kB] Get:57 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libsystemd-shared riscv64 255-1ubuntu1 [2175 kB] Get:58 http://ftpmaster.internal/ubuntu noble/main riscv64 libargon2-1 riscv64 0~20190702+dfsg-4 [23.7 kB] Get:59 http://ftpmaster.internal/ubuntu noble/main riscv64 libuuid1 riscv64 2.39.2-6ubuntu1 [36.2 kB] Get:60 http://ftpmaster.internal/ubuntu noble/main riscv64 libcryptsetup12 riscv64 2:2.6.1-5ubuntu1 [246 kB] Get:61 http://ftpmaster.internal/ubuntu noble/main riscv64 libfdisk1 riscv64 2.39.2-6ubuntu1 [234 kB] Get:62 http://ftpmaster.internal/ubuntu noble/main riscv64 mount riscv64 2.39.2-6ubuntu1 [150 kB] Get:63 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libsystemd0 riscv64 255-1ubuntu1 [452 kB] Get:64 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libudev1 riscv64 255-1ubuntu1 [176 kB] Get:65 http://ftpmaster.internal/ubuntu noble/main riscv64 libxxhash0 riscv64 0.8.2-2 [43.7 kB] Get:66 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libapt-pkg6.0 riscv64 2.7.7 [989 kB] Get:67 http://ftpmaster.internal/ubuntu noble/main riscv64 tar riscv64 1.34+dfsg-1.2ubuntu2 [305 kB] Get:68 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 dpkg riscv64 1.22.1ubuntu5 [1393 kB] Get:69 http://ftpmaster.internal/ubuntu noble/main riscv64 grep riscv64 3.11-3 [167 kB] Get:70 http://ftpmaster.internal/ubuntu noble/main riscv64 login riscv64 1:4.13+dfsg1-3ubuntu1 [202 kB] Get:71 http://ftpmaster.internal/ubuntu noble/main riscv64 ncurses-bin riscv64 6.4+20231209-1 [184 kB] Get:72 http://ftpmaster.internal/ubuntu noble/main riscv64 libperl5.36 riscv64 5.36.0-10ubuntu1 [4337 kB] Get:73 http://ftpmaster.internal/ubuntu noble/main riscv64 perl riscv64 5.36.0-10ubuntu1 [235 kB] Get:74 http://ftpmaster.internal/ubuntu noble/main riscv64 perl-base riscv64 5.36.0-10ubuntu1 [1760 kB] Get:75 http://ftpmaster.internal/ubuntu noble/main riscv64 perl-modules-5.36 all 5.36.0-10ubuntu1 [2984 kB] Get:76 http://ftpmaster.internal/ubuntu noble/main riscv64 libdb5.3 riscv64 5.3.28+dfsg2-4 [783 kB] Get:77 http://ftpmaster.internal/ubuntu noble/main riscv64 libgdbm6 riscv64 1.23-5 [34.3 kB] Get:78 http://ftpmaster.internal/ubuntu noble/main riscv64 libgdbm-compat4 riscv64 1.23-5 [6414 B] Get:79 http://ftpmaster.internal/ubuntu noble/main riscv64 util-linux riscv64 2.39.2-6ubuntu1 [1314 kB] Get:80 http://ftpmaster.internal/ubuntu noble/main riscv64 libdebconfclient0 riscv64 0.271ubuntu1 [11.1 kB] Get:81 http://ftpmaster.internal/ubuntu noble/main riscv64 base-passwd riscv64 3.6.3 [52.1 kB] Get:82 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 init-system-helpers all 1.66ubuntu1 [39.4 kB] Get:83 http://ftpmaster.internal/ubuntu noble/main riscv64 libc-bin riscv64 2.38-3ubuntu1 [601 kB] Get:84 http://ftpmaster.internal/ubuntu noble/main riscv64 ncurses-base all 6.4+20231209-1 [25.2 kB] Get:85 http://ftpmaster.internal/ubuntu noble/main riscv64 sysvinit-utils riscv64 3.08-3ubuntu1 [34.5 kB] Get:86 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 apt riscv64 2.7.7 [1338 kB] Get:87 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 apt-utils riscv64 2.7.7 [225 kB] Get:88 http://ftpmaster.internal/ubuntu noble/main riscv64 ubuntu-keyring all 2023.11.28.1 [11.1 kB] Get:89 http://ftpmaster.internal/ubuntu noble/main riscv64 libunistring5 riscv64 1.1-2 [544 kB] Get:90 http://ftpmaster.internal/ubuntu noble/main riscv64 libidn2-0 riscv64 2.3.4-1build1 [99.3 kB] Get:91 http://ftpmaster.internal/ubuntu noble/main riscv64 libffi8 riscv64 3.4.4-2 [22.5 kB] Get:92 http://ftpmaster.internal/ubuntu noble/main riscv64 libp11-kit0 riscv64 0.25.3-2ubuntu2 [308 kB] Get:93 http://ftpmaster.internal/ubuntu noble/main riscv64 libgnutls30 riscv64 3.8.1-4ubuntu6 [995 kB] Get:94 http://ftpmaster.internal/ubuntu noble/main riscv64 libpam-modules-bin riscv64 1.5.2-9.1ubuntu1 [50.2 kB] Get:95 http://ftpmaster.internal/ubuntu noble/main riscv64 libpam-modules riscv64 1.5.2-9.1ubuntu1 [286 kB] Get:96 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 init riscv64 1.66ubuntu1 [6190 B] Get:97 http://ftpmaster.internal/ubuntu noble/main riscv64 libsmartcols1 riscv64 2.39.2-6ubuntu1 [142 kB] Get:98 http://ftpmaster.internal/ubuntu noble/main riscv64 uuid-runtime riscv64 2.39.2-6ubuntu1 [48.3 kB] Get:99 http://ftpmaster.internal/ubuntu noble/main riscv64 libgpg-error-l10n all 1.47-3build1 [8024 B] Get:100 http://ftpmaster.internal/ubuntu noble/main riscv64 libgpg-error0 riscv64 1.47-3build1 [75.7 kB] Get:101 http://ftpmaster.internal/ubuntu noble/main riscv64 libpam-runtime all 1.5.2-9.1ubuntu1 [41.5 kB] Get:102 http://ftpmaster.internal/ubuntu noble/main riscv64 libsemanage-common all 3.5-1build1 [9982 B] Get:103 http://ftpmaster.internal/ubuntu noble/main riscv64 libsepol2 riscv64 3.5-2 [312 kB] Get:104 http://ftpmaster.internal/ubuntu noble/main riscv64 libsemanage2 riscv64 3.5-1build1 [97.7 kB] Get:105 http://ftpmaster.internal/ubuntu noble/main riscv64 libncursesw6 riscv64 6.4+20231209-1 [150 kB] Get:106 http://ftpmaster.internal/ubuntu noble/main riscv64 libtinfo6 riscv64 6.4+20231209-1 [106 kB] Get:107 http://ftpmaster.internal/ubuntu noble/main riscv64 passwd riscv64 1:4.13+dfsg1-3ubuntu1 [857 kB] Get:108 http://ftpmaster.internal/ubuntu noble/main riscv64 libproc2-0 riscv64 2:4.0.4-2ubuntu1 [58.9 kB] Get:109 http://ftpmaster.internal/ubuntu noble/main riscv64 mawk riscv64 1.3.4.20231126-1 [126 kB] Get:110 http://ftpmaster.internal/ubuntu noble/main riscv64 procps riscv64 2:4.0.4-2ubuntu1 [712 kB] Get:111 http://ftpmaster.internal/ubuntu noble/main riscv64 krb5-locales all 1.20.1-5build1 [13.7 kB] Get:112 http://ftpmaster.internal/ubuntu noble/main riscv64 readline-common all 8.2-3 [56.2 kB] Get:113 http://ftpmaster.internal/ubuntu noble/main riscv64 libreadline8 riscv64 8.2-3 [151 kB] Get:114 http://ftpmaster.internal/ubuntu noble/main riscv64 libsqlite3-0 riscv64 3.44.2-1 [703 kB] Get:115 http://ftpmaster.internal/ubuntu noble/main riscv64 openssl riscv64 3.0.10-1ubuntu3 [1170 kB] Get:116 http://ftpmaster.internal/ubuntu noble/main riscv64 bash-completion all 1:2.11-8 [180 kB] Get:117 http://ftpmaster.internal/ubuntu noble/main riscv64 bsdextrautils riscv64 2.39.2-6ubuntu1 [91.3 kB] Get:118 http://ftpmaster.internal/ubuntu noble/main riscv64 libpng16-16 riscv64 1.6.40-2 [189 kB] Get:119 http://ftpmaster.internal/ubuntu noble/main riscv64 xz-utils riscv64 5.4.5-0.1 [268 kB] Get:120 http://ftpmaster.internal/ubuntu noble/main riscv64 g++ riscv64 4:13.2.0-2ubuntu1 [1110 B] Get:121 http://ftpmaster.internal/ubuntu noble/main riscv64 gcc riscv64 4:13.2.0-2ubuntu1 [5192 B] Get:122 http://ftpmaster.internal/ubuntu noble/main riscv64 cpp riscv64 4:13.2.0-2ubuntu1 [29.0 kB] Get:123 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 dpkg-dev all 1.22.1ubuntu5 [1147 kB] Get:124 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 libdpkg-perl all 1.22.1ubuntu5 [286 kB] Get:125 http://ftpmaster.internal/ubuntu noble/main riscv64 lto-disabled-list all 44 [12.4 kB] Get:126 http://ftpmaster.internal/ubuntu noble/main riscv64 libfakeroot riscv64 1.32.2-1 [33.3 kB] Get:127 http://ftpmaster.internal/ubuntu noble/main riscv64 fakeroot riscv64 1.32.2-1 [77.8 kB] Get:128 http://ftpmaster.internal/ubuntu noble/main riscv64 optipng riscv64 0.7.7-3 [86.9 kB] Get:129 http://ftpmaster.internal/ubuntu noble/main riscv64 pinentry-curses riscv64 1.2.1-3ubuntu1 [39.5 kB] Preconfiguring packages ... 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Setting up dpkg-dev (1.22.1ubuntu5) ... Setting up libnsl-dev:riscv64 (1.3.0-3) ... Setting up libc6-dev:riscv64 (2.38-3ubuntu1) ... Setting up libstdc++-13-dev:riscv64 (13.2.0-8ubuntu1) ... Setting up g++-13 (13.2.0-8ubuntu1) ... Setting up g++ (4:13.2.0-2ubuntu1) ... Processing triggers for libc-bin (2.38-3ubuntu1) ... Processing triggers for debianutils (5.14) ... RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-27260538 riscv64 noble-proposed -c chroot:build-PACKAGEBUILD-27260538 --arch=riscv64 --dist=noble-proposed --nolog bamtools_2.5.2+dfsg-5.dsc Initiating build PACKAGEBUILD-27260538 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 5.19.0-1021-generic #23~22.04.1-Ubuntu SMP Thu Jun 22 12:49:35 UTC 2023 riscv64 sbuild (Debian sbuild) 0.81.2ubuntu6 (16 February 2022) on bos03-riscv64-049.buildd +==============================================================================+ | bamtools 2.5.2+dfsg-5 (riscv64) Fri, 15 Dec 2023 23:22:07 +0000 | +==============================================================================+ Package: bamtools Version: 2.5.2+dfsg-5 Source Version: 2.5.2+dfsg-5 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-27260538/chroot-autobuild' with '<>' I: NOTICE: Log filtering will replace 'build/bamtools-NI5Ovf/resolver-J36MiP' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- bamtools_2.5.2+dfsg-5.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/bamtools-NI5Ovf/bamtools-2.5.2+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/bamtools-NI5Ovf' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), d-shlibs, cmake, zlib1g-dev, libjsoncpp-dev, help2man, doxygen, pkg-config, build-essential, fakeroot Filtered Build-Depends: debhelper-compat (= 13), d-shlibs, cmake, zlib1g-dev, libjsoncpp-dev, help2man, doxygen, pkg-config, 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 [417 B] Get:5 copy:/<>/apt_archive ./ Packages [502 B] Fetched 1876 B in 0s (5659 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 libnss-nis libnss-nisplus libtext-charwidth-perl libtext-iconv-perl libtext-wrapi18n-perl libunistring2 openssl psmisc uuid-runtime Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev cmake cmake-data d-shlibs debhelper debugedit dh-autoreconf dh-strip-nondeterminism doxygen dwz file gettext gettext-base groff-base help2man intltool-debian libarchive-zip-perl libarchive13 libbrotli1 libbsd0 libclang-cpp17 libclang1-17 libcurl4 libdebhelper-perl libdw1 libedit2 libelf1 libexpat1 libfile-stripnondeterminism-perl libfmt9 libicu72 libjsoncpp-dev libjsoncpp25 libldap2 libllvm17 libmagic-mgc libmagic1 libnghttp2-14 libpipeline1 libpkgconf3 libpsl5 librhash0 librtmp1 libsasl2-2 libsasl2-modules-db libssh-4 libsub-override-perl libtool libuchardet0 libuv1 libxapian30 libxml2 m4 man-db pkg-config pkgconf pkgconf-bin po-debconf zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc cmake-doc cmake-format elpa-cmake-mode ninja-build dh-make doxygen-latex doxygen-doc doxygen-gui graphviz gettext-doc libasprintf-dev libgettextpo-dev groff lrzip libtool-doc gfortran | fortran95-compiler gcj-jdk xapian-tools m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx libarchive-cpio-perl libldap-common publicsuffix libsasl2-modules libltdl-dev libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev cmake cmake-data d-shlibs debhelper debugedit dh-autoreconf dh-strip-nondeterminism doxygen dwz file gettext gettext-base groff-base help2man intltool-debian libarchive-zip-perl libarchive13 libbrotli1 libbsd0 libclang-cpp17 libclang1-17 libcurl4 libdebhelper-perl libdw1 libedit2 libelf1 libexpat1 libfile-stripnondeterminism-perl libfmt9 libicu72 libjsoncpp-dev libjsoncpp25 libldap2 libllvm17 libmagic-mgc libmagic1 libnghttp2-14 libpipeline1 libpkgconf3 libpsl5 librhash0 librtmp1 libsasl2-2 libsasl2-modules-db libssh-4 libsub-override-perl libtool libuchardet0 libuv1 libxapian30 libxml2 m4 man-db pkg-config pkgconf pkgconf-bin po-debconf sbuild-build-depends-main-dummy zlib1g-dev 0 upgraded, 63 newly installed, 0 to remove and 0 not upgraded. Need to get 86.8 MB of archives. After this operation, 322 MB of additional disk space will be used. 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riscv64 libuchardet0 riscv64 0.0.8-1 [77.4 kB] Get:12 http://ftpmaster.internal/ubuntu noble/main riscv64 groff-base riscv64 1.23.0-3 [1017 kB] Get:13 http://ftpmaster.internal/ubuntu noble/main riscv64 libedit2 riscv64 3.1-20230828-1 [94.8 kB] Get:14 http://ftpmaster.internal/ubuntu noble/main riscv64 libnghttp2-14 riscv64 1.58.0-1 [82.4 kB] Get:15 http://ftpmaster.internal/ubuntu noble/main riscv64 libpipeline1 riscv64 1.5.7-1 [26.8 kB] Get:16 http://ftpmaster.internal/ubuntu noble/main riscv64 libpsl5 riscv64 0.21.2-1build1 [57.2 kB] Get:17 http://ftpmaster.internal/ubuntu noble/main riscv64 libuv1 riscv64 1.46.0-2ubuntu1 [99.2 kB] Get:18 http://ftpmaster.internal/ubuntu noble/main riscv64 man-db riscv64 2.12.0-1 [1214 kB] Get:19 http://ftpmaster.internal/ubuntu noble/main riscv64 m4 riscv64 1.4.19-4 [261 kB] Get:20 http://ftpmaster.internal/ubuntu noble/main riscv64 autoconf all 2.71-3 [339 kB] Get:21 http://ftpmaster.internal/ubuntu noble/main riscv64 autotools-dev all 20220109.1 [44.9 kB] Get:22 http://ftpmaster.internal/ubuntu noble/main riscv64 automake all 1:1.16.5-1.3 [558 kB] Get:23 http://ftpmaster.internal/ubuntu noble/main riscv64 autopoint all 0.21-14 [422 kB] Get:24 http://ftpmaster.internal/ubuntu noble/main riscv64 libarchive13 riscv64 3.7.2-1ubuntu2 [391 kB] Get:25 http://ftpmaster.internal/ubuntu noble/main riscv64 libbrotli1 riscv64 1.1.0-2 [381 kB] Get:26 http://ftpmaster.internal/ubuntu noble/main riscv64 libsasl2-modules-db riscv64 2.1.28+dfsg1-4 [21.5 kB] Get:27 http://ftpmaster.internal/ubuntu noble/main riscv64 libsasl2-2 riscv64 2.1.28+dfsg1-4 [61.0 kB] Get:28 http://ftpmaster.internal/ubuntu noble/main riscv64 libldap2 riscv64 2.6.6+dfsg-1~exp1ubuntu1 [201 kB] Get:29 http://ftpmaster.internal/ubuntu noble/main riscv64 librtmp1 riscv64 2.4+20151223.gitfa8646d.1-2build4 [54.6 kB] Get:30 http://ftpmaster.internal/ubuntu noble/main riscv64 libssh-4 riscv64 0.10.5-3ubuntu1 [195 kB] Get:31 http://ftpmaster.internal/ubuntu noble/main riscv64 libcurl4 riscv64 8.4.0-2ubuntu1 [345 kB] Get:32 http://ftpmaster.internal/ubuntu noble/main riscv64 libjsoncpp25 riscv64 1.9.5-6 [79.0 kB] Get:33 http://ftpmaster.internal/ubuntu noble/main riscv64 librhash0 riscv64 1.4.3-3 [139 kB] Get:34 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 cmake-data all 3.28.0-1 [2154 kB] Get:35 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 cmake riscv64 3.28.0-1 [11.2 MB] Get:36 http://ftpmaster.internal/ubuntu noble/universe riscv64 d-shlibs all 0.105 [10.9 kB] Get:37 http://ftpmaster.internal/ubuntu noble/main riscv64 libdebhelper-perl all 13.11.8ubuntu1 [85.9 kB] Get:38 http://ftpmaster.internal/ubuntu noble/main riscv64 libtool all 2.4.7-7 [166 kB] Get:39 http://ftpmaster.internal/ubuntu noble/main riscv64 dh-autoreconf all 20 [16.1 kB] Get:40 http://ftpmaster.internal/ubuntu noble/main riscv64 libarchive-zip-perl all 1.68-1 [90.2 kB] Get:41 http://ftpmaster.internal/ubuntu noble/main riscv64 libsub-override-perl all 0.10-1 [10.0 kB] Get:42 http://ftpmaster.internal/ubuntu noble/main riscv64 libfile-stripnondeterminism-perl all 1.13.1-1 [18.1 kB] Get:43 http://ftpmaster.internal/ubuntu noble/main riscv64 dh-strip-nondeterminism all 1.13.1-1 [5362 B] Get:44 http://ftpmaster.internal/ubuntu noble/main riscv64 libdw1 riscv64 0.190-1 [268 kB] Get:45 http://ftpmaster.internal/ubuntu noble/main riscv64 debugedit riscv64 1:5.0-5 [48.8 kB] Get:46 http://ftpmaster.internal/ubuntu noble/main riscv64 dwz riscv64 0.15-1 [115 kB] Get:47 http://ftpmaster.internal/ubuntu noble/main riscv64 gettext riscv64 0.21-14 [867 kB] Get:48 http://ftpmaster.internal/ubuntu noble/main riscv64 intltool-debian all 0.35.0+20060710.6 [23.2 kB] Get:49 http://ftpmaster.internal/ubuntu noble/main riscv64 po-debconf all 1.0.21+nmu1 [233 kB] Get:50 http://ftpmaster.internal/ubuntu noble/main riscv64 debhelper all 13.11.8ubuntu1 [940 kB] Get:51 http://ftpmaster.internal/ubuntu noble/main riscv64 libllvm17 riscv64 1:17.0.6-2 [25.1 MB] Get:52 http://ftpmaster.internal/ubuntu noble/universe riscv64 libclang-cpp17 riscv64 1:17.0.6-2 [12.8 MB] Get:53 http://ftpmaster.internal/ubuntu noble/universe riscv64 libclang1-17 riscv64 1:17.0.6-2 [7181 kB] Get:54 http://ftpmaster.internal/ubuntu noble/universe riscv64 libfmt9 riscv64 9.1.0+ds1-2 [61.4 kB] Get:55 http://ftpmaster.internal/ubuntu noble/universe riscv64 libxapian30 riscv64 1.4.22-1 [707 kB] Get:56 http://ftpmaster.internal/ubuntu noble-proposed/universe riscv64 doxygen riscv64 1.9.8+ds-2 [5188 kB] Get:57 http://ftpmaster.internal/ubuntu noble/universe riscv64 help2man riscv64 1.49.3 [200 kB] Get:58 http://ftpmaster.internal/ubuntu noble/main riscv64 libpkgconf3 riscv64 1.8.1-2 [27.8 kB] Get:59 http://ftpmaster.internal/ubuntu noble/main riscv64 pkgconf-bin riscv64 1.8.1-2 [20.4 kB] Get:60 http://ftpmaster.internal/ubuntu noble/main riscv64 pkgconf riscv64 1.8.1-2 [16.7 kB] Get:61 http://ftpmaster.internal/ubuntu noble/main riscv64 pkg-config riscv64 1.8.1-2 [7172 B] Get:62 http://ftpmaster.internal/ubuntu noble-proposed/main riscv64 zlib1g-dev riscv64 1:1.3.dfsg-3ubuntu1 [973 kB] Get:63 http://ftpmaster.internal/ubuntu noble/main riscv64 libjsoncpp-dev riscv64 1.9.5-6 [23.0 kB] Preconfiguring packages ... Fetched 86.8 MB in 10s (8563 kB/s) Selecting previously unselected package libbsd0:riscv64. (Reading database ... 13748 files and directories currently installed.) Preparing to unpack .../00-libbsd0_0.11.7-4_riscv64.deb ... Unpacking libbsd0:riscv64 (0.11.7-4) ... Selecting previously unselected package libelf1:riscv64. Preparing to unpack .../01-libelf1_0.190-1_riscv64.deb ... Unpacking libelf1:riscv64 (0.190-1) ... Selecting previously unselected package libexpat1:riscv64. Preparing to unpack .../02-libexpat1_2.5.0-2_riscv64.deb ... Unpacking libexpat1:riscv64 (2.5.0-2) ... Selecting previously unselected package libicu72:riscv64. Preparing to unpack .../03-libicu72_72.1-4ubuntu1_riscv64.deb ... Unpacking libicu72:riscv64 (72.1-4ubuntu1) ... Selecting previously unselected package libxml2:riscv64. Preparing to unpack .../04-libxml2_2.9.14+dfsg-1.3build2_riscv64.deb ... Unpacking libxml2:riscv64 (2.9.14+dfsg-1.3build2) ... Selecting previously unselected package libmagic-mgc. 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Setting up dh-autoreconf (20) ... Setting up pkg-config:riscv64 (1.8.1-2) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up dwz (0.15-1) ... Setting up groff-base (1.23.0-3) ... Setting up debugedit (1:5.0-5) ... Setting up libcurl4:riscv64 (8.4.0-2ubuntu1) ... Setting up libllvm17:riscv64 (1:17.0.6-2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libclang1-17 (1:17.0.6-2) ... Setting up man-db (2.12.0-1) ... 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 cmake (3.28.0-1) ... Setting up libclang-cpp17 (1:17.0.6-2) ... Setting up debhelper (13.11.8ubuntu1) ... Setting up doxygen (1.9.8+ds-2) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.38-3ubuntu1) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (riscv64 included in any all) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 5.19.0-1021-generic #23~22.04.1-Ubuntu SMP Thu Jun 22 12:49:35 UTC 2023 riscv64 (riscv64) Toolchain package versions: binutils_2.41.50.20231214-1ubuntu1 dpkg-dev_1.22.1ubuntu5 g++-13_13.2.0-8ubuntu1 gcc-13_13.2.0-8ubuntu1 libc6-dev_2.38-3ubuntu1 libstdc++-13-dev_13.2.0-8ubuntu1 libstdc++6_13.2.0-8ubuntu1 linux-libc-dev_6.6.0-14.14 Package versions: adduser_3.137ubuntu1 advancecomp_2.5-1 apt_2.7.7 apt-utils_2.7.7 autoconf_2.71-3 automake_1:1.16.5-1.3 autopoint_0.21-14 autotools-dev_20220109.1 base-files_13ubuntu5 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Crusoe , Andreas Tille , Kevin Murray , Étienne Mollier Homepage: https://github.com/pezmaster31/bamtools/wiki Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/bamtools Vcs-Git: https://salsa.debian.org/med-team/bamtools.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), d-shlibs, cmake, zlib1g-dev, libjsoncpp-dev, help2man, doxygen, pkg-config Package-List: bamtools deb science optional arch=any libbamtools-dev deb libdevel optional arch=any libbamtools-doc deb doc optional arch=all libbamtools2.5.2 deb libs optional arch=any Checksums-Sha1: 22affe59a445f08e603c3f9d5378b32d06fbccd7 155732 bamtools_2.5.2+dfsg.orig.tar.xz 9ed811f07b3d00b0243e92519ee085739d65386a 10412 bamtools_2.5.2+dfsg-5.debian.tar.xz Checksums-Sha256: bba4d268cb9457cd836b59c60eac6a9f25e10cd9aea646f03e5deffb82c1c5c1 155732 bamtools_2.5.2+dfsg.orig.tar.xz 6a126c8007d9889ec20495231c4f119485e4f8ada6c70570bd59888365e625a8 10412 bamtools_2.5.2+dfsg-5.debian.tar.xz Files: a29fafa8a0f930c3029749245032e886 155732 bamtools_2.5.2+dfsg.orig.tar.xz 6599f77962b28a80f43063d18a6306c2 10412 bamtools_2.5.2+dfsg-5.debian.tar.xz Dgit: d6bbd015dfe9f74968f9233ca0f95bbb45764f85 debian archive/debian/2.5.2+dfsg-5 https://git.dgit.debian.org/bamtools -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmV8l2QUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdoTRA//UDX7rfaL4eIfzGNDhQVs1/6eIbAy ihOQ4Jsz8PJvyUnx87HTXyuXNVPtT+i1QxtxBzIqam58I7zpuco/rU1Nt1Hcfzl3 lV7kj3pSKg4LPe7gyf8DjvN+Jrdo38c1DzBIuSMvmw0xhnLI724AzPkpBUeq0bHz YxrJYdBt7ZxkO50RjnzxwGf/GQK6/2o8iIhjwsWd7hTEOhyoMVq+DHa8WzPevPoA nBJ57m4H4w9SeBMbeIr25m/PI1c/xJwzMr2kX/g6l+SITDunGADfkW36EQ/V+W9p FeplqBKV83FRzd0x9k0wD/uYeV0oX0C9ltLbr2vcyHtVfjIv0znEm0gS3+GxVujG AQ0GA4bzIsD16hikreOSlA7tjeMcrZNv/TgO6qt6WhLh3D7sU05gl4fr9ctwEsIb MTMZg4JvSPhFr9hvYVrPmRz1JaqgkKipLAPzDzcd22yWxRDus5S15CB02FTdLxg6 u2GCfzvda8PN+TsHRFmcUAmOB9ukr8xDKCOuf/sgAvIc3O5biAy9S9Q6FRnfKESj AOERMCAc2Sucf4cqjqX5i0eIxyjygOgZKOzkKnntZuVgT5zgW3BwBiYQU76i180c 5ncWoU9MyUC84IRoB0mGP4I7Yh29uOoZRlCZLkRuHcp7JWHCUKWyJNRLXFX8EyzS Lsi9KQuXyKS8gzg= =GXPw -----END PGP SIGNATURE----- gpgv: Signature made Fri Dec 15 18:13:56 2023 UTC gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: issuer "emollier@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./bamtools_2.5.2+dfsg-5.dsc: no acceptable signature found dpkg-source: info: extracting bamtools in /<> dpkg-source: info: unpacking bamtools_2.5.2+dfsg.orig.tar.xz dpkg-source: info: unpacking bamtools_2.5.2+dfsg-5.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying 0001-ignore-thirdparty-and-fix-jsoncpp.patch dpkg-source: info: applying shared_and_static.patch dpkg-source: info: applying typo.patch Check disk space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=4 HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LOGNAME=buildd PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=build-PACKAGEBUILD-27260538 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-27260538 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-27260538 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 bamtools dpkg-buildpackage: info: source version 2.5.2+dfsg-5 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build . dpkg-buildpackage: info: host architecture riscv64 debian/rules clean dh clean debian/rules execute_after_dh_auto_clean make[1]: Entering directory '/<>' test ! -f docs/Doxyfile.orig || mv docs/Doxyfile.orig docs/Doxyfile make[1]: Leaving directory '/<>' dh_clean debian/rules binary-arch dh binary-arch dh_update_autotools_config -a dh_autoreconf -a dh_auto_configure -a cd obj-riscv64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/riscv64-linux-gnu .. CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- The CXX compiler identification is GNU 13.2.0 -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Found PkgConfig: /usr/bin/pkg-config (found version "1.8.1") -- Checking for one of the modules 'jsoncpp>=1' Found system JsonCpp, not using bundled version -- Found ZLIB: /usr/lib/riscv64-linux-gnu/libz.so (found version "1.3") -- Performing Test COMPILER_HAS_HIDDEN_VISIBILITY -- Performing Test COMPILER_HAS_HIDDEN_VISIBILITY - Success -- Performing Test COMPILER_HAS_HIDDEN_INLINE_VISIBILITY -- Performing Test COMPILER_HAS_HIDDEN_INLINE_VISIBILITY - Success -- Performing Test COMPILER_HAS_DEPRECATED_ATTR -- Performing Test COMPILER_HAS_DEPRECATED_ATTR - Success -- Configuring done (14.3s) -- Generating done (0.8s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /<>/obj-riscv64-linux-gnu dh_auto_build -a cd obj-riscv64-linux-gnu && make -j4 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/<>/obj-riscv64-linux-gnu' /usr/bin/cmake -S/<> -B/<>/obj-riscv64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/obj-riscv64-linux-gnu/CMakeFiles /<>/obj-riscv64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/<>/obj-riscv64-linux-gnu' make -f src/CMakeFiles/BamTools.dir/build.make src/CMakeFiles/BamTools.dir/depend make -f src/CMakeFiles/BamTools_static.dir/build.make src/CMakeFiles/BamTools_static.dir/depend make[3]: Entering directory '/<>/obj-riscv64-linux-gnu' cd /<>/obj-riscv64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/obj-riscv64-linux-gnu /<>/obj-riscv64-linux-gnu/src /<>/obj-riscv64-linux-gnu/src/CMakeFiles/BamTools_static.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/<>/obj-riscv64-linux-gnu' cd /<>/obj-riscv64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/obj-riscv64-linux-gnu /<>/obj-riscv64-linux-gnu/src /<>/obj-riscv64-linux-gnu/src/CMakeFiles/BamTools.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-riscv64-linux-gnu' make -f src/CMakeFiles/BamTools_static.dir/build.make src/CMakeFiles/BamTools_static.dir/build make[3]: Leaving directory '/<>/obj-riscv64-linux-gnu' make -f src/CMakeFiles/BamTools.dir/build.make src/CMakeFiles/BamTools.dir/build make[3]: Entering directory '/<>/obj-riscv64-linux-gnu' make[3]: Entering directory '/<>/obj-riscv64-linux-gnu' [ 2%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/BamMultiReader.cpp.o [ 2%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/BamAlignment.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/BamAlignment.cpp.o -MF CMakeFiles/BamTools_static.dir/api/BamAlignment.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/BamAlignment.cpp.o -c /<>/src/api/BamAlignment.cpp cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/BamMultiReader.cpp.o -MF CMakeFiles/BamTools_static.dir/api/BamMultiReader.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/BamMultiReader.cpp.o -c /<>/src/api/BamMultiReader.cpp [ 3%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/BamReader.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/BamReader.cpp.o -MF CMakeFiles/BamTools_static.dir/api/BamReader.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/BamReader.cpp.o -c /<>/src/api/BamReader.cpp [ 4%] Building CXX object src/CMakeFiles/BamTools.dir/api/BamAlignment.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/BamAlignment.cpp.o -MF CMakeFiles/BamTools.dir/api/BamAlignment.cpp.o.d -o CMakeFiles/BamTools.dir/api/BamAlignment.cpp.o -c /<>/src/api/BamAlignment.cpp : warning: "_FORTIFY_SOURCE" redefined : warning: "_FORTIFY_SOURCE" redefined : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition : note: this is the location of the previous definition : note: this is the location of the previous definition : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition In file included from /<>/src/api/internal/bam/BamMultiMerger_p.h:32, from /<>/src/api/internal/bam/BamMultiReader_p.h:29, from /<>/src/api/BamMultiReader.cpp:16: /<>/src/api/algorithms/Sort.h:64:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 64 | typedef std::binary_function AlignmentSortBase; | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/bits/stl_tree.h:65, from /usr/include/c++/13/map:62, from /<>/src/api/BamMultiReader.h:13, from /<>/src/api/BamMultiReader.cpp:15: /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/api/internal/bam/BamMultiMerger_p.h:52:52: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 52 | struct API_NO_EXPORT MergeItemSorter : public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 5%] Building CXX object src/CMakeFiles/BamTools.dir/api/BamMultiReader.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/BamMultiReader.cpp.o -MF CMakeFiles/BamTools.dir/api/BamMultiReader.cpp.o.d -o CMakeFiles/BamTools.dir/api/BamMultiReader.cpp.o -c /<>/src/api/BamMultiReader.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 6%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/BamWriter.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/BamWriter.cpp.o -MF CMakeFiles/BamTools_static.dir/api/BamWriter.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/BamWriter.cpp.o -c /<>/src/api/BamWriter.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 7%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamHeader.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/SamHeader.cpp.o -MF CMakeFiles/BamTools_static.dir/api/SamHeader.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/SamHeader.cpp.o -c /<>/src/api/SamHeader.cpp [ 8%] Building CXX object src/CMakeFiles/BamTools.dir/api/BamReader.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/BamReader.cpp.o -MF CMakeFiles/BamTools.dir/api/BamReader.cpp.o.d -o CMakeFiles/BamTools.dir/api/BamReader.cpp.o -c /<>/src/api/BamReader.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition In file included from /<>/src/api/internal/bam/BamMultiMerger_p.h:32, from /<>/src/api/internal/bam/BamMultiReader_p.h:29, from /<>/src/api/BamMultiReader.cpp:16: /<>/src/api/algorithms/Sort.h:64:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 64 | typedef std::binary_function AlignmentSortBase; | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/bits/stl_tree.h:65, from /usr/include/c++/13/map:62, from /<>/src/api/BamMultiReader.h:13, from /<>/src/api/BamMultiReader.cpp:15: /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/api/internal/bam/BamMultiMerger_p.h:52:52: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 52 | struct API_NO_EXPORT MergeItemSorter : public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 9%] Building CXX object src/CMakeFiles/BamTools.dir/api/BamWriter.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/BamWriter.cpp.o -MF CMakeFiles/BamTools.dir/api/BamWriter.cpp.o.d -o CMakeFiles/BamTools.dir/api/BamWriter.cpp.o -c /<>/src/api/BamWriter.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 10%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamHeader.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/SamHeader.cpp.o -MF CMakeFiles/BamTools.dir/api/SamHeader.cpp.o.d -o CMakeFiles/BamTools.dir/api/SamHeader.cpp.o -c /<>/src/api/SamHeader.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 11%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamProgram.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/SamProgram.cpp.o -MF CMakeFiles/BamTools_static.dir/api/SamProgram.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/SamProgram.cpp.o -c /<>/src/api/SamProgram.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 12%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamProgramChain.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/SamProgramChain.cpp.o -MF CMakeFiles/BamTools_static.dir/api/SamProgramChain.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/SamProgramChain.cpp.o -c /<>/src/api/SamProgramChain.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 13%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamProgram.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/SamProgram.cpp.o -MF CMakeFiles/BamTools.dir/api/SamProgram.cpp.o.d -o CMakeFiles/BamTools.dir/api/SamProgram.cpp.o -c /<>/src/api/SamProgram.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 14%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamProgramChain.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/SamProgramChain.cpp.o -MF CMakeFiles/BamTools.dir/api/SamProgramChain.cpp.o.d -o CMakeFiles/BamTools.dir/api/SamProgramChain.cpp.o -c /<>/src/api/SamProgramChain.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 15%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamReadGroup.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/SamReadGroup.cpp.o -MF CMakeFiles/BamTools.dir/api/SamReadGroup.cpp.o.d -o CMakeFiles/BamTools.dir/api/SamReadGroup.cpp.o -c /<>/src/api/SamReadGroup.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 16%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamReadGroupDictionary.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/SamReadGroupDictionary.cpp.o -MF CMakeFiles/BamTools.dir/api/SamReadGroupDictionary.cpp.o.d -o CMakeFiles/BamTools.dir/api/SamReadGroupDictionary.cpp.o -c /<>/src/api/SamReadGroupDictionary.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 17%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamReadGroup.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/SamReadGroup.cpp.o -MF CMakeFiles/BamTools_static.dir/api/SamReadGroup.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/SamReadGroup.cpp.o -c /<>/src/api/SamReadGroup.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 18%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamReadGroupDictionary.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/SamReadGroupDictionary.cpp.o -MF CMakeFiles/BamTools_static.dir/api/SamReadGroupDictionary.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/SamReadGroupDictionary.cpp.o -c /<>/src/api/SamReadGroupDictionary.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 19%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamSequence.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/SamSequence.cpp.o -MF CMakeFiles/BamTools.dir/api/SamSequence.cpp.o.d -o CMakeFiles/BamTools.dir/api/SamSequence.cpp.o -c /<>/src/api/SamSequence.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 20%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamSequence.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/SamSequence.cpp.o -MF CMakeFiles/BamTools_static.dir/api/SamSequence.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/SamSequence.cpp.o -c /<>/src/api/SamSequence.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 21%] Building CXX object src/CMakeFiles/BamTools.dir/api/SamSequenceDictionary.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/SamSequenceDictionary.cpp.o -MF CMakeFiles/BamTools.dir/api/SamSequenceDictionary.cpp.o.d -o CMakeFiles/BamTools.dir/api/SamSequenceDictionary.cpp.o -c /<>/src/api/SamSequenceDictionary.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 22%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/SamSequenceDictionary.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/SamSequenceDictionary.cpp.o -MF CMakeFiles/BamTools_static.dir/api/SamSequenceDictionary.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/SamSequenceDictionary.cpp.o -c /<>/src/api/SamSequenceDictionary.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 23%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/bam/BamHeader_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/bam/BamHeader_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/bam/BamHeader_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/bam/BamHeader_p.cpp.o -c /<>/src/api/internal/bam/BamHeader_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 24%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamHeader_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamHeader_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/bam/BamHeader_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/bam/BamHeader_p.cpp.o -c /<>/src/api/internal/bam/BamHeader_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 25%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/bam/BamMultiReader_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/bam/BamMultiReader_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/bam/BamMultiReader_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/bam/BamMultiReader_p.cpp.o -c /<>/src/api/internal/bam/BamMultiReader_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 26%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamMultiReader_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamMultiReader_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/bam/BamMultiReader_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/bam/BamMultiReader_p.cpp.o -c /<>/src/api/internal/bam/BamMultiReader_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 27%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/bam/BamRandomAccessController_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/bam/BamRandomAccessController_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/bam/BamRandomAccessController_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/bam/BamRandomAccessController_p.cpp.o -c /<>/src/api/internal/bam/BamRandomAccessController_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition In file included from /<>/src/api/internal/bam/BamMultiMerger_p.h:32, from /<>/src/api/internal/bam/BamMultiReader_p.h:29, from /<>/src/api/internal/bam/BamMultiReader_p.cpp:10: /<>/src/api/algorithms/Sort.h:64:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 64 | typedef std::binary_function AlignmentSortBase; | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/string:49, from /usr/include/c++/13/stdexcept:39, from /<>/src/shared/bamtools_global.h:72, from /<>/src/api/api_global.h:14, from /<>/src/api/internal/bam/BamMultiReader_p.h:13: /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/api/internal/bam/BamMultiMerger_p.h:52:52: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 52 | struct API_NO_EXPORT MergeItemSorter : public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 28%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamRandomAccessController_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamRandomAccessController_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/bam/BamRandomAccessController_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/bam/BamRandomAccessController_p.cpp.o -c /<>/src/api/internal/bam/BamRandomAccessController_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition In file included from /<>/src/api/internal/bam/BamMultiMerger_p.h:32, from /<>/src/api/internal/bam/BamMultiReader_p.h:29, from /<>/src/api/internal/bam/BamMultiReader_p.cpp:10: /<>/src/api/algorithms/Sort.h:64:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 64 | typedef std::binary_function AlignmentSortBase; | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/string:49, from /usr/include/c++/13/stdexcept:39, from /<>/src/shared/bamtools_global.h:72, from /<>/src/api/api_global.h:14, from /<>/src/api/internal/bam/BamMultiReader_p.h:13: /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ /<>/src/api/internal/bam/BamMultiMerger_p.h:52:52: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 52 | struct API_NO_EXPORT MergeItemSorter : public std::binary_function | ^~~~~~~~~~~~~~~ /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 29%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/bam/BamReader_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/bam/BamReader_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/bam/BamReader_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/bam/BamReader_p.cpp.o -c /<>/src/api/internal/bam/BamReader_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 30%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamReader_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamReader_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/bam/BamReader_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/bam/BamReader_p.cpp.o -c /<>/src/api/internal/bam/BamReader_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 31%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/bam/BamWriter_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/bam/BamWriter_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/bam/BamWriter_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/bam/BamWriter_p.cpp.o -c /<>/src/api/internal/bam/BamWriter_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 32%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamWriter_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/bam/BamWriter_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/bam/BamWriter_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/bam/BamWriter_p.cpp.o -c /<>/src/api/internal/bam/BamWriter_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 33%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/index/BamIndexFactory_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/index/BamIndexFactory_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/index/BamIndexFactory_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/index/BamIndexFactory_p.cpp.o -c /<>/src/api/internal/index/BamIndexFactory_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 34%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/index/BamIndexFactory_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/index/BamIndexFactory_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/index/BamIndexFactory_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/index/BamIndexFactory_p.cpp.o -c /<>/src/api/internal/index/BamIndexFactory_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 35%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/index/BamStandardIndex_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/index/BamStandardIndex_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/index/BamStandardIndex_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/index/BamStandardIndex_p.cpp.o -c /<>/src/api/internal/index/BamStandardIndex_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 36%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/index/BamStandardIndex_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/index/BamStandardIndex_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/index/BamStandardIndex_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/index/BamStandardIndex_p.cpp.o -c /<>/src/api/internal/index/BamStandardIndex_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 37%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/index/BamToolsIndex_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/index/BamToolsIndex_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/index/BamToolsIndex_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/index/BamToolsIndex_p.cpp.o -c /<>/src/api/internal/index/BamToolsIndex_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 38%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/index/BamToolsIndex_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/index/BamToolsIndex_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/index/BamToolsIndex_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/index/BamToolsIndex_p.cpp.o -c /<>/src/api/internal/index/BamToolsIndex_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 39%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BamDeviceFactory_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/BamDeviceFactory_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/BamDeviceFactory_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/BamDeviceFactory_p.cpp.o -c /<>/src/api/internal/io/BamDeviceFactory_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 40%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/BamDeviceFactory_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/BamDeviceFactory_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/BamDeviceFactory_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/BamDeviceFactory_p.cpp.o -c /<>/src/api/internal/io/BamDeviceFactory_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 41%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/BamFile_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/BamFile_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/BamFile_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/BamFile_p.cpp.o -c /<>/src/api/internal/io/BamFile_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 42%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BamFile_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/BamFile_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/BamFile_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/BamFile_p.cpp.o -c /<>/src/api/internal/io/BamFile_p.cpp [ 43%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BamFtp_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/BamFtp_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/BamFtp_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/BamFtp_p.cpp.o -c /<>/src/api/internal/io/BamFtp_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 44%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BamHttp_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/BamHttp_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/BamHttp_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/BamHttp_p.cpp.o -c /<>/src/api/internal/io/BamHttp_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 45%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/BamFtp_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/BamFtp_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/BamFtp_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/BamFtp_p.cpp.o -c /<>/src/api/internal/io/BamFtp_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 46%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/BamHttp_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/BamHttp_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/BamHttp_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/BamHttp_p.cpp.o -c /<>/src/api/internal/io/BamHttp_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 47%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/BamPipe_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/BamPipe_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/BamPipe_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/BamPipe_p.cpp.o -c /<>/src/api/internal/io/BamPipe_p.cpp [ 48%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BamPipe_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/BamPipe_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/BamPipe_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/BamPipe_p.cpp.o -c /<>/src/api/internal/io/BamPipe_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 50%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/BgzfStream_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/BgzfStream_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/BgzfStream_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/BgzfStream_p.cpp.o -c /<>/src/api/internal/io/BgzfStream_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 51%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/BgzfStream_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/BgzfStream_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/BgzfStream_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/BgzfStream_p.cpp.o -c /<>/src/api/internal/io/BgzfStream_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 52%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/ByteArray_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/ByteArray_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/ByteArray_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/ByteArray_p.cpp.o -c /<>/src/api/internal/io/ByteArray_p.cpp [ 53%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/ByteArray_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/ByteArray_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/ByteArray_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/ByteArray_p.cpp.o -c /<>/src/api/internal/io/ByteArray_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 54%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/HostAddress_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/HostAddress_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/HostAddress_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/HostAddress_p.cpp.o -c /<>/src/api/internal/io/HostAddress_p.cpp [ 55%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/HostInfo_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/HostInfo_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/HostInfo_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/HostInfo_p.cpp.o -c /<>/src/api/internal/io/HostInfo_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 56%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/HttpHeader_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/HttpHeader_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/HttpHeader_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/HttpHeader_p.cpp.o -c /<>/src/api/internal/io/HttpHeader_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 57%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/HostAddress_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/HostAddress_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/HostAddress_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/HostAddress_p.cpp.o -c /<>/src/api/internal/io/HostAddress_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 58%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/HostInfo_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/HostInfo_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/HostInfo_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/HostInfo_p.cpp.o -c /<>/src/api/internal/io/HostInfo_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 59%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/HttpHeader_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/HttpHeader_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/HttpHeader_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/HttpHeader_p.cpp.o -c /<>/src/api/internal/io/HttpHeader_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 60%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/ILocalIODevice_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/ILocalIODevice_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/ILocalIODevice_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/ILocalIODevice_p.cpp.o -c /<>/src/api/internal/io/ILocalIODevice_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 61%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/ILocalIODevice_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/ILocalIODevice_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/ILocalIODevice_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/ILocalIODevice_p.cpp.o -c /<>/src/api/internal/io/ILocalIODevice_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 62%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/RollingBuffer_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/RollingBuffer_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/RollingBuffer_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/RollingBuffer_p.cpp.o -c /<>/src/api/internal/io/RollingBuffer_p.cpp [ 63%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/RollingBuffer_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/RollingBuffer_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/RollingBuffer_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/RollingBuffer_p.cpp.o -c /<>/src/api/internal/io/RollingBuffer_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 64%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_p.cpp.o -c /<>/src/api/internal/io/TcpSocketEngine_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 65%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocket_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocket_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocket_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocket_p.cpp.o -c /<>/src/api/internal/io/TcpSocket_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 66%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/sam/SamFormatParser_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/sam/SamFormatParser_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/sam/SamFormatParser_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/sam/SamFormatParser_p.cpp.o -c /<>/src/api/internal/sam/SamFormatParser_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 67%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_p.cpp.o -c /<>/src/api/internal/io/TcpSocketEngine_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 68%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/TcpSocket_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/TcpSocket_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/TcpSocket_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/TcpSocket_p.cpp.o -c /<>/src/api/internal/io/TcpSocket_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 69%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/sam/SamFormatPrinter_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/sam/SamFormatPrinter_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/sam/SamFormatPrinter_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/sam/SamFormatPrinter_p.cpp.o -c /<>/src/api/internal/sam/SamFormatPrinter_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 70%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/sam/SamHeaderValidator_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/sam/SamHeaderValidator_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/sam/SamHeaderValidator_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/sam/SamHeaderValidator_p.cpp.o -c /<>/src/api/internal/sam/SamHeaderValidator_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 71%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/sam/SamFormatParser_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/sam/SamFormatParser_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/sam/SamFormatParser_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/sam/SamFormatParser_p.cpp.o -c /<>/src/api/internal/sam/SamFormatParser_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 72%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/utils/BamException_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/utils/BamException_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/utils/BamException_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/utils/BamException_p.cpp.o -c /<>/src/api/internal/utils/BamException_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 73%] Building CXX object src/CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o -MF CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o.d -o CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o -c /<>/src/api/internal/io/TcpSocketEngine_unix_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 74%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/sam/SamFormatPrinter_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/sam/SamFormatPrinter_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/sam/SamFormatPrinter_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/sam/SamFormatPrinter_p.cpp.o -c /<>/src/api/internal/sam/SamFormatPrinter_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 75%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/sam/SamHeaderValidator_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/sam/SamHeaderValidator_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/sam/SamHeaderValidator_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/sam/SamHeaderValidator_p.cpp.o -c /<>/src/api/internal/sam/SamHeaderValidator_p.cpp [ 76%] Linking CXX static library libbamtools.a cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/cmake -P CMakeFiles/BamTools_static.dir/cmake_clean_target.cmake : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/BamTools_static.dir/link.txt --verbose=1 /usr/bin/ar qc libbamtools.a CMakeFiles/BamTools_static.dir/api/BamAlignment.cpp.o CMakeFiles/BamTools_static.dir/api/BamMultiReader.cpp.o CMakeFiles/BamTools_static.dir/api/BamReader.cpp.o CMakeFiles/BamTools_static.dir/api/BamWriter.cpp.o CMakeFiles/BamTools_static.dir/api/SamHeader.cpp.o CMakeFiles/BamTools_static.dir/api/SamProgram.cpp.o CMakeFiles/BamTools_static.dir/api/SamProgramChain.cpp.o CMakeFiles/BamTools_static.dir/api/SamReadGroup.cpp.o CMakeFiles/BamTools_static.dir/api/SamReadGroupDictionary.cpp.o CMakeFiles/BamTools_static.dir/api/SamSequence.cpp.o CMakeFiles/BamTools_static.dir/api/SamSequenceDictionary.cpp.o CMakeFiles/BamTools_static.dir/api/internal/bam/BamHeader_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/bam/BamMultiReader_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/bam/BamRandomAccessController_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/bam/BamReader_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/bam/BamWriter_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/index/BamIndexFactory_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/index/BamStandardIndex_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/index/BamToolsIndex_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/BamDeviceFactory_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/BamFile_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/BamFtp_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/BamHttp_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/BamPipe_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/BgzfStream_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/ByteArray_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/HostAddress_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/HostInfo_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/HttpHeader_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/ILocalIODevice_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/RollingBuffer_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocket_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/sam/SamFormatParser_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/sam/SamFormatPrinter_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/sam/SamHeaderValidator_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/utils/BamException_p.cpp.o CMakeFiles/BamTools_static.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o /usr/bin/ranlib libbamtools.a [ 77%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/utils/BamException_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/utils/BamException_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/utils/BamException_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/utils/BamException_p.cpp.o -c /<>/src/api/internal/utils/BamException_p.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition make[3]: Leaving directory '/<>/obj-riscv64-linux-gnu' [ 78%] Building CXX object src/CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -DBamTools_EXPORTS -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -fPIC -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o -MF CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o.d -o CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o -c /<>/src/api/internal/io/TcpSocketEngine_unix_p.cpp [ 78%] Built target BamTools_static : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 79%] Linking CXX shared library libbamtools.so cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/BamTools.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libbamtools.so.2.5.2 -o libbamtools.so.2.5.2 CMakeFiles/BamTools.dir/api/BamAlignment.cpp.o CMakeFiles/BamTools.dir/api/BamMultiReader.cpp.o CMakeFiles/BamTools.dir/api/BamReader.cpp.o CMakeFiles/BamTools.dir/api/BamWriter.cpp.o CMakeFiles/BamTools.dir/api/SamHeader.cpp.o CMakeFiles/BamTools.dir/api/SamProgram.cpp.o CMakeFiles/BamTools.dir/api/SamProgramChain.cpp.o CMakeFiles/BamTools.dir/api/SamReadGroup.cpp.o CMakeFiles/BamTools.dir/api/SamReadGroupDictionary.cpp.o CMakeFiles/BamTools.dir/api/SamSequence.cpp.o CMakeFiles/BamTools.dir/api/SamSequenceDictionary.cpp.o CMakeFiles/BamTools.dir/api/internal/bam/BamHeader_p.cpp.o CMakeFiles/BamTools.dir/api/internal/bam/BamMultiReader_p.cpp.o CMakeFiles/BamTools.dir/api/internal/bam/BamRandomAccessController_p.cpp.o CMakeFiles/BamTools.dir/api/internal/bam/BamReader_p.cpp.o CMakeFiles/BamTools.dir/api/internal/bam/BamWriter_p.cpp.o CMakeFiles/BamTools.dir/api/internal/index/BamIndexFactory_p.cpp.o CMakeFiles/BamTools.dir/api/internal/index/BamStandardIndex_p.cpp.o CMakeFiles/BamTools.dir/api/internal/index/BamToolsIndex_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/BamDeviceFactory_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/BamFile_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/BamFtp_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/BamHttp_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/BamPipe_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/BgzfStream_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/ByteArray_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/HostAddress_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/HostInfo_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/HttpHeader_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/ILocalIODevice_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/RollingBuffer_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/TcpSocket_p.cpp.o CMakeFiles/BamTools.dir/api/internal/sam/SamFormatParser_p.cpp.o CMakeFiles/BamTools.dir/api/internal/sam/SamFormatPrinter_p.cpp.o CMakeFiles/BamTools.dir/api/internal/sam/SamHeaderValidator_p.cpp.o CMakeFiles/BamTools.dir/api/internal/utils/BamException_p.cpp.o CMakeFiles/BamTools.dir/api/internal/io/TcpSocketEngine_unix_p.cpp.o -lz cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/cmake -E cmake_symlink_library libbamtools.so.2.5.2 libbamtools.so.2.5.2 libbamtools.so make[3]: Leaving directory '/<>/obj-riscv64-linux-gnu' [ 79%] Built target BamTools make -f src/CMakeFiles/BamTools-utils.dir/build.make src/CMakeFiles/BamTools-utils.dir/depend make[3]: Entering directory '/<>/obj-riscv64-linux-gnu' cd /<>/obj-riscv64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/obj-riscv64-linux-gnu /<>/obj-riscv64-linux-gnu/src /<>/obj-riscv64-linux-gnu/src/CMakeFiles/BamTools-utils.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-riscv64-linux-gnu' make -f src/CMakeFiles/BamTools-utils.dir/build.make src/CMakeFiles/BamTools-utils.dir/build make[3]: Entering directory '/<>/obj-riscv64-linux-gnu' [ 80%] Building CXX object src/CMakeFiles/BamTools-utils.dir/utils/bamtools_pileup_engine.cpp.o [ 81%] Building CXX object src/CMakeFiles/BamTools-utils.dir/utils/bamtools_fasta.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools-utils.dir/utils/bamtools_pileup_engine.cpp.o -MF CMakeFiles/BamTools-utils.dir/utils/bamtools_pileup_engine.cpp.o.d -o CMakeFiles/BamTools-utils.dir/utils/bamtools_pileup_engine.cpp.o -c /<>/src/utils/bamtools_pileup_engine.cpp cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools-utils.dir/utils/bamtools_fasta.cpp.o -MF CMakeFiles/BamTools-utils.dir/utils/bamtools_fasta.cpp.o.d -o CMakeFiles/BamTools-utils.dir/utils/bamtools_fasta.cpp.o -c /<>/src/utils/bamtools_fasta.cpp [ 82%] Building CXX object src/CMakeFiles/BamTools-utils.dir/utils/bamtools_utilities.cpp.o [ 83%] Building CXX object src/CMakeFiles/BamTools-utils.dir/utils/bamtools_options.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools-utils.dir/utils/bamtools_utilities.cpp.o -MF CMakeFiles/BamTools-utils.dir/utils/bamtools_utilities.cpp.o.d -o CMakeFiles/BamTools-utils.dir/utils/bamtools_utilities.cpp.o -c /<>/src/utils/bamtools_utilities.cpp cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/BamTools-utils.dir/utils/bamtools_options.cpp.o -MF CMakeFiles/BamTools-utils.dir/utils/bamtools_options.cpp.o.d -o CMakeFiles/BamTools-utils.dir/utils/bamtools_options.cpp.o -c /<>/src/utils/bamtools_options.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition : warning: "_FORTIFY_SOURCE" redefined : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition : note: this is the location of the previous definition : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition /<>/src/utils/bamtools_fasta.cpp: In member function ‘bool BamTools::Fasta::FastaPrivate::CreateIndex(const std::string&)’: /<>/src/utils/bamtools_fasta.cpp:161:15: warning: comparison is always true due to limited range of data type [-Wtype-limits] 161 | while ((c >= 0) && (c != '\n')) { | ~~^~~~ [ 84%] Linking CXX static library libBamTools-utils.a cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/cmake -P CMakeFiles/BamTools-utils.dir/cmake_clean_target.cmake cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/BamTools-utils.dir/link.txt --verbose=1 /usr/bin/ar qc libBamTools-utils.a "CMakeFiles/BamTools-utils.dir/utils/bamtools_fasta.cpp.o" "CMakeFiles/BamTools-utils.dir/utils/bamtools_options.cpp.o" "CMakeFiles/BamTools-utils.dir/utils/bamtools_pileup_engine.cpp.o" "CMakeFiles/BamTools-utils.dir/utils/bamtools_utilities.cpp.o" /usr/bin/ranlib libBamTools-utils.a make[3]: Leaving directory '/<>/obj-riscv64-linux-gnu' [ 84%] Built target BamTools-utils make -f src/CMakeFiles/bamtools_cmd.dir/build.make src/CMakeFiles/bamtools_cmd.dir/depend make[3]: Entering directory '/<>/obj-riscv64-linux-gnu' cd /<>/obj-riscv64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<> /<>/src /<>/obj-riscv64-linux-gnu /<>/obj-riscv64-linux-gnu/src /<>/obj-riscv64-linux-gnu/src/CMakeFiles/bamtools_cmd.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/<>/obj-riscv64-linux-gnu' make -f src/CMakeFiles/bamtools_cmd.dir/build.make src/CMakeFiles/bamtools_cmd.dir/build make[3]: Entering directory '/<>/obj-riscv64-linux-gnu' [ 86%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_count.cpp.o [ 86%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_convert.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_convert.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_convert.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_convert.cpp.o -c /<>/src/toolkit/bamtools_convert.cpp cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_count.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_count.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_count.cpp.o -c /<>/src/toolkit/bamtools_count.cpp [ 87%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_coverage.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_coverage.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_coverage.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_coverage.cpp.o -c /<>/src/toolkit/bamtools_coverage.cpp [ 88%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools.cpp.o -c /<>/src/toolkit/bamtools.cpp : warning: "_FORTIFY_SOURCE" redefined : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition : note: this is the location of the previous definition : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition In file included from /<>/src/api/BamAlgorithms.h:15, from /<>/src/toolkit/bamtools_count.cpp:12: /<>/src/api/algorithms/Sort.h:64:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 64 | typedef std::binary_function AlignmentSortBase; | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/string:49, from /<>/src/toolkit/bamtools_tool.h:14, from /<>/src/toolkit/bamtools_count.h:13, from /<>/src/toolkit/bamtools_count.cpp:10: /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 89%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_filter.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_filter.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_filter.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_filter.cpp.o -c /<>/src/toolkit/bamtools_filter.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 90%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_header.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_header.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_header.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_header.cpp.o -c /<>/src/toolkit/bamtools_header.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 91%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_index.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_index.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_index.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_index.cpp.o -c /<>/src/toolkit/bamtools_index.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 92%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_merge.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_merge.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_merge.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_merge.cpp.o -c /<>/src/toolkit/bamtools_merge.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 93%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_random.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_random.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_random.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_random.cpp.o -c /<>/src/toolkit/bamtools_random.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 94%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_resolve.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_resolve.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_resolve.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_resolve.cpp.o -c /<>/src/toolkit/bamtools_resolve.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 95%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_revert.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_revert.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_revert.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_revert.cpp.o -c /<>/src/toolkit/bamtools_revert.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 96%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_sort.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_sort.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_sort.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_sort.cpp.o -c /<>/src/toolkit/bamtools_sort.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition In file included from /<>/src/toolkit/bamtools_sort.cpp:15: /<>/src/api/algorithms/Sort.h:64:18: warning: ‘template struct std::binary_function’ is deprecated [-Wdeprecated-declarations] 64 | typedef std::binary_function AlignmentSortBase; | ^~~~~~~~~~~~~~~ In file included from /usr/include/c++/13/string:49, from /<>/src/toolkit/bamtools_tool.h:14, from /<>/src/toolkit/bamtools_sort.h:13, from /<>/src/toolkit/bamtools_sort.cpp:10: /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here 131 | struct binary_function | ^~~~~~~~~~~~~~~ [ 97%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_split.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_split.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_split.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_split.cpp.o -c /<>/src/toolkit/bamtools_split.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [ 98%] Building CXX object src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_stats.cpp.o cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/c++ -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_LARGEFILE_SOURCE -I/usr/include/jsoncpp -I/<>/src -I/<>/obj-riscv64-linux-gnu/src -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -std=c++11 -Wall -Wextra -pedantic -MD -MT src/CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_stats.cpp.o -MF CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_stats.cpp.o.d -o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_stats.cpp.o -c /<>/src/toolkit/bamtools_stats.cpp : warning: "_FORTIFY_SOURCE" redefined : note: this is the location of the previous definition [100%] Linking CXX executable bamtools cd /<>/obj-riscv64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/bamtools_cmd.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fno-omit-frame-pointer -ffile-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fdebug-prefix-map=/<>=/usr/src/bamtools-2.5.2+dfsg-5 -Wdate-time -D_FORTIFY_SOURCE=3 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/bamtools_cmd.dir/toolkit/bamtools.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_convert.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_count.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_coverage.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_filter.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_header.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_index.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_merge.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_random.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_resolve.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_revert.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_sort.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_split.cpp.o CMakeFiles/bamtools_cmd.dir/toolkit/bamtools_stats.cpp.o -o bamtools -Wl,-rpath,/<>/obj-riscv64-linux-gnu/src: libBamTools-utils.a -L/usr/lib/riscv64-linux-gnu -ljsoncpp libbamtools.so.2.5.2 make[3]: Leaving directory '/<>/obj-riscv64-linux-gnu' [100%] Built target bamtools_cmd make[2]: Leaving directory '/<>/obj-riscv64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /<>/obj-riscv64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/<>/obj-riscv64-linux-gnu' create-stamp debian/debhelper-build-stamp dh_prep -a dh_auto_install -a cd obj-riscv64-linux-gnu && make -j4 install DESTDIR=/<>/bamtools-2.5.2\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/<>/obj-riscv64-linux-gnu' /usr/bin/cmake -S/<> -B/<>/obj-riscv64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/<>/obj-riscv64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/<>/obj-riscv64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /<>/debian/tmp/usr/lib/riscv64-linux-gnu/libbamtools.so.2.5.2 -- Installing: /<>/debian/tmp/usr/lib/riscv64-linux-gnu/libbamtools.so -- Installing: /<>/debian/tmp/usr/lib/riscv64-linux-gnu/libbamtools.a -- Installing: /<>/debian/tmp/usr/bin/bamtools -- Set non-toolchain portion of runtime path of "/<>/debian/tmp/usr/bin/bamtools" to "" -- Installing: /<>/debian/tmp/usr/include/bamtools/api/BamAlgorithms.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/BamAlignment.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/BamAux.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/BamConstants.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/BamIndex.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/BamMultiReader.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/BamReader.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/BamWriter.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/IBamIODevice.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/SamConstants.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/SamHeader.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/SamProgram.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/SamProgramChain.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/SamReadGroup.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/SamReadGroupDictionary.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/SamSequence.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/SamSequenceDictionary.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/api_global.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/bamtools_api_export.h -- Installing: /<>/debian/tmp/usr/include/bamtools/api/algorithms/Sort.h -- Installing: /<>/debian/tmp/usr/include/bamtools/shared/bamtools_global.h -- Installing: /<>/debian/tmp/usr/lib/riscv64-linux-gnu/pkgconfig/bamtools-1.pc make[1]: Leaving directory '/<>/obj-riscv64-linux-gnu' debian/rules override_dh_install-arch make[1]: Entering directory '/<>' dh_install --arch d-shlibmove --commit \ --multiarch \ --devunversioned \ --exclude-la \ --movedev debian/tmp/usr/include/* usr/include \ --movedev "debian/tmp/usr/lib/*/pkgconfig/*.pc" usr/lib/riscv64-linux-gnu/pkgconfig \ debian/tmp/usr/lib/*/*.so Library package automatic movement utility --> zlib1g-dev package exists. set -e install -d -m 755 debian/libbamtools-dev/usr/lib/riscv64-linux-gnu install -d -m 755 debian/libbamtools2.5.2/usr/lib/riscv64-linux-gnu mv debian/tmp/usr/lib/riscv64-linux-gnu/libbamtools.a debian/libbamtools-dev/usr/lib/riscv64-linux-gnu mv debian/tmp/usr/lib/riscv64-linux-gnu/libbamtools.so debian/libbamtools-dev/usr/lib/riscv64-linux-gnu mv /<>/debian/tmp/usr/lib/riscv64-linux-gnu/libbamtools.so.2.5.2 debian/libbamtools2.5.2/usr/lib/riscv64-linux-gnu PKGDEV=libbamtools-dev PKGSHL=libbamtools2.5.2 install -d -m 755 debian/libbamtools-dev/usr/include mv debian/tmp/usr/include/bamtools debian/libbamtools-dev/usr/include install -d -m 755 debian/libbamtools-dev/usr/lib/riscv64-linux-gnu/pkgconfig mv debian/tmp/usr/lib/*/pkgconfig/*.pc debian/libbamtools-dev/usr/lib/riscv64-linux-gnu/pkgconfig make[1]: Leaving directory '/<>' dh_installdocs -a dh_installchangelogs -a dh_installman -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_missing -a dh_dwz -a dh_strip -a 7844baf2d2297cff03be7cf7adc468ecd6f8630e 9d83b93849358d01ba519a032aef448e44f7fb0d dh_makeshlibs -a dh_shlibdeps -a dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a INFO: pkgstriptranslations version 154 INFO: pkgstriptranslations version 154 INFO: pkgstriptranslations version 154 pkgstriptranslations: processing libbamtools-dev (in debian/libbamtools-dev); do_strip: , oemstrip: pkgstriptranslations: processing libbamtools2.5.2-dbgsym (in debian/.debhelper/libbamtools2.5.2/dbgsym-root); do_strip: , oemstrip: pkgstriptranslations: processing bamtools (in debian/bamtools); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/libbamtools-dev/DEBIAN/control, package libbamtools-dev, directory debian/libbamtools-dev INFO: pkgstripfiles: waiting for lock (libbamtools-dev) ... pkgstripfiles: processing control file: debian/bamtools/DEBIAN/control, package bamtools, directory debian/bamtools Searching for duplicated docs in dependency libbamtools2.5.2... symlinking changelog.Debian.gz in bamtools to file in libbamtools2.5.2 pkgstripfiles: Running PNG optimization (using 4 cpus) for package bamtools ... INFO: pkgstripfiles: waiting for lock (libbamtools-dev) ... pkgstripfiles: No PNG files. dpkg-deb: building package 'bamtools' in '../bamtools_2.5.2+dfsg-5_riscv64.deb'. pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " Searching for duplicated docs in dependency libbamtools2.5.2... symlinking changelog.Debian.gz in libbamtools-dev to file in libbamtools2.5.2 pkgstripfiles: Running PNG optimization (using 4 cpus) for package libbamtools-dev ... pkgstripfiles: No PNG files. dpkg-deb: building package 'libbamtools-dev' in '../libbamtools-dev_2.5.2+dfsg-5_riscv64.deb'. pkgstripfiles: processing control file: debian/.debhelper/libbamtools2.5.2/dbgsym-root/DEBIAN/control, package libbamtools2.5.2-dbgsym, directory debian/.debhelper/libbamtools2.5.2/dbgsym-root dpkg-deb: building package 'libbamtools2.5.2-dbgsym' in 'debian/.debhelper/scratch-space/build-libbamtools2.5.2/libbamtools2.5.2-dbgsym_2.5.2+dfsg-5_riscv64.deb'. Renaming libbamtools2.5.2-dbgsym_2.5.2+dfsg-5_riscv64.deb to libbamtools2.5.2-dbgsym_2.5.2+dfsg-5_riscv64.ddeb INFO: pkgstriptranslations version 154 pkgstriptranslations: processing bamtools-dbgsym (in debian/.debhelper/bamtools/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/.debhelper/bamtools/dbgsym-root/DEBIAN/control, package bamtools-dbgsym, directory debian/.debhelper/bamtools/dbgsym-root dpkg-deb: building package 'bamtools-dbgsym' in 'debian/.debhelper/scratch-space/build-bamtools/bamtools-dbgsym_2.5.2+dfsg-5_riscv64.deb'. Renaming bamtools-dbgsym_2.5.2+dfsg-5_riscv64.deb to bamtools-dbgsym_2.5.2+dfsg-5_riscv64.ddeb INFO: pkgstriptranslations version 154 pkgstriptranslations: processing libbamtools2.5.2 (in debian/libbamtools2.5.2); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/libbamtools2.5.2/DEBIAN/control, package libbamtools2.5.2, directory debian/libbamtools2.5.2 pkgstripfiles: Running PNG optimization (using 4 cpus) for package libbamtools2.5.2 ... pkgstripfiles: No PNG files. dpkg-deb: building package 'libbamtools2.5.2' in '../libbamtools2.5.2_2.5.2+dfsg-5_riscv64.deb'. dpkg-genbuildinfo --build=any -O../bamtools_2.5.2+dfsg-5_riscv64.buildinfo dpkg-genchanges --build=any -mLaunchpad Build Daemon -O../bamtools_2.5.2+dfsg-5_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 2023-12-15T23:33:59Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ bamtools_2.5.2+dfsg-5_riscv64.changes: -------------------------------------- Format: 1.8 Date: Fri, 15 Dec 2023 19:09:45 +0100 Source: bamtools Binary: bamtools libbamtools-dev libbamtools2.5.2 Built-For-Profiles: noudeb Architecture: riscv64 Version: 2.5.2+dfsg-5 Distribution: noble-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Étienne Mollier Description: bamtools - toolkit for manipulating BAM (genome alignment) files libbamtools-dev - C++ API for manipulating BAM (genome alignment) files libbamtools2.5.2 - dynamic library for manipulating BAM (genome alignment) files Closes: 1043881 Changes: bamtools (2.5.2+dfsg-5) unstable; urgency=medium . * d/control: add myself to uploaders. * d/rules: preserve pristine Doxyfile. (Closes: #1043881) * typo.patch: new: fix typo caught by lintian. 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0.8.3-3), libcap2 (= 1:2.66-4ubuntu1), libcc1-0 (= 13.2.0-8ubuntu1), libclang-cpp17 (= 1:17.0.6-2), libclang1-17 (= 1:17.0.6-2), libcom-err2 (= 1.47.0-2ubuntu1), libcrypt-dev (= 1:4.4.36-2), libcrypt1 (= 1:4.4.36-2), libctf-nobfd0 (= 2.41.50.20231214-1ubuntu1), libctf0 (= 2.41.50.20231214-1ubuntu1), libcurl4 (= 8.4.0-2ubuntu1), libdb5.3 (= 5.3.28+dfsg2-4), libdebconfclient0 (= 0.271ubuntu1), libdebhelper-perl (= 13.11.8ubuntu1), libdpkg-perl (= 1.22.1ubuntu5), libdw1 (= 0.190-1), libedit2 (= 3.1-20230828-1), libelf1 (= 0.190-1), libexpat1 (= 2.5.0-2), libffi8 (= 3.4.4-2), libfile-stripnondeterminism-perl (= 1.13.1-1), libfmt9 (= 9.1.0+ds1-2), libgcc-13-dev (= 13.2.0-8ubuntu1), libgcc-s1 (= 13.2.0-8ubuntu1), libgcrypt20 (= 1.10.2-3ubuntu1), libgdbm-compat4 (= 1.23-5), libgdbm6 (= 1.23-5), libgmp10 (= 2:6.3.0+dfsg-2ubuntu4), libgnutls30 (= 3.8.1-4ubuntu6), libgomp1 (= 13.2.0-8ubuntu1), libgpg-error0 (= 1.47-3build1), libgssapi-krb5-2 (= 1.20.1-5build1), libhogweed6 (= 3.9.1-2), libicu72 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(= 2:4.0.4-2ubuntu1), libpsl5 (= 0.21.2-1build1), librhash0 (= 1.4.3-3), librtmp1 (= 2.4+20151223.gitfa8646d.1-2build4), libsasl2-2 (= 2.1.28+dfsg1-4), libsasl2-modules-db (= 2.1.28+dfsg1-4), libselinux1 (= 3.5-1build2), libsemanage-common (= 3.5-1build1), libsemanage2 (= 3.5-1build1), libsepol2 (= 3.5-2), libsframe1 (= 2.41.50.20231214-1ubuntu1), libsmartcols1 (= 2.39.2-6ubuntu1), libsqlite3-0 (= 3.44.2-1), libssh-4 (= 0.10.5-3ubuntu1), libssl3 (= 3.0.10-1ubuntu3), libstdc++-13-dev (= 13.2.0-8ubuntu1), libstdc++6 (= 13.2.0-8ubuntu1), libsub-override-perl (= 0.10-1), libsystemd0 (= 255-1ubuntu1), libtasn1-6 (= 4.19.0-3), libtinfo6 (= 6.4+20231209-1), libtirpc-common (= 1.3.4+ds-1), libtirpc-dev (= 1.3.4+ds-1), libtirpc3 (= 1.3.4+ds-1), libtool (= 2.4.7-7), libuchardet0 (= 0.0.8-1), libudev1 (= 255-1ubuntu1), libunistring5 (= 1.1-2), libuuid1 (= 2.39.2-6ubuntu1), libuv1 (= 1.46.0-2ubuntu1), libxapian30 (= 1.4.22-1), libxml2 (= 2.9.14+dfsg-1.3build2), libxxhash0 (= 0.8.2-2), libzstd1 (= 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SOURCE_DATE_EPOCH="1702663785" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ bamtools_2.5.2+dfsg-5_riscv64.deb --------------------------------- new Debian package, version 2.0. size 208174 bytes: control archive=1370 bytes. 1891 bytes, 38 lines control 474 bytes, 7 lines md5sums Package: bamtools Version: 2.5.2+dfsg-5 Architecture: riscv64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 514 Depends: libbamtools2.5.2 (>= 2.5.2+dfsg), libc6 (>= 2.38), libgcc-s1 (>= 3.4), libjsoncpp25 (>= 1.9.5), libstdc++6 (>= 13.1) Section: science Priority: optional Homepage: https://github.com/pezmaster31/bamtools/wiki Description: toolkit for manipulating BAM (genome alignment) files BamTools facilitates research analysis and data management using BAM files. It copes with the enormous amount of data produced by current sequencing technologies that is typically stored in compressed, binary formats that are not easily handled by the text-based parsers commonly used in bioinformatics research. . BamTools provides both a C++ API for BAM file support as well as a command-line toolkit. . This is the bamtools command-line toolkit. . Available bamtools commands: convert Converts between BAM and a number of other formats count Prints number of alignments in BAM file(s) coverage Prints coverage statistics from the input BAM file filter Filters BAM file(s) by user-specified criteria header Prints BAM header information index Generates index for BAM file merge Merge multiple BAM files into single file random Select random alignments from existing BAM file(s), intended more as a testing tool. resolve Resolves paired-end reads (marking the IsProperPair flag as needed) revert Removes duplicate marks and restores original base qualities sort Sorts the BAM file according to some criteria split Splits a BAM file on user-specified property, creating a new BAM output file for each value found stats Prints some basic statistics from input BAM file(s) drwxr-xr-x root/root 0 2023-12-15 18:09 ./ drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/ drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/bin/ -rwxr-xr-x root/root 506072 2023-12-15 18:09 ./usr/bin/bamtools drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/ drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/doc/ drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/doc/bamtools/ -rw-r--r-- root/root 262 2023-12-15 18:09 ./usr/share/doc/bamtools/README.test lrwxrwxrwx root/root 0 2023-12-15 18:09 ./usr/share/doc/bamtools/changelog.Debian.gz -> ../libbamtools2.5.2/changelog.Debian.gz -rw-r--r-- root/root 1665 2023-12-15 18:09 ./usr/share/doc/bamtools/copyright -rw-r--r-- root/root 352 2023-12-15 18:09 ./usr/share/doc/bamtools/filter_script -rw-r--r-- root/root 1607 2023-12-15 18:09 ./usr/share/doc/bamtools/run-unit-test -rw-r--r-- root/root 375 2023-12-15 18:09 ./usr/share/doc/bamtools/sam_spec_example.bam drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/man/ drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/man/man1/ -rw-r--r-- root/root 792 2023-12-15 18:09 ./usr/share/man/man1/bamtools.1.gz libbamtools-dev_2.5.2+dfsg-5_riscv64.deb ---------------------------------------- new Debian package, version 2.0. size 1011450 bytes: control archive=1538 bytes. 1050 bytes, 26 lines control 1884 bytes, 25 lines md5sums Package: libbamtools-dev Source: bamtools Version: 2.5.2+dfsg-5 Architecture: riscv64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 7946 Depends: libbamtools2.5.2 (= 2.5.2+dfsg-5), zlib1g-dev Suggests: libbamtools-doc (= 2.5.2+dfsg-5) Breaks: libbamtools2.5.1 Replaces: libbamtools2.5.1 Section: libdevel Priority: optional Multi-Arch: same Homepage: https://github.com/pezmaster31/bamtools/wiki Description: C++ API for manipulating BAM (genome alignment) files BamTools facilitates research analysis and data management using BAM files. It copes with the enormous amount of data produced by current sequencing technologies that is typically stored in compressed, binary formats that are not easily handled by the text-based parsers commonly used in bioinformatics research. . BamTools provides both a C++ API for BAM file support as well as a command-line toolkit. . This is the developers API package. drwxr-xr-x root/root 0 2023-12-15 18:09 ./ drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/ drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/include/ drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/include/bamtools/ drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/include/bamtools/api/ -rw-r--r-- root/root 848 2021-06-20 19:43 ./usr/include/bamtools/api/BamAlgorithms.h -rw-r--r-- root/root 22982 2021-06-20 19:43 ./usr/include/bamtools/api/BamAlignment.h -rw-r--r-- root/root 10700 2021-06-20 19:43 ./usr/include/bamtools/api/BamAux.h -rw-r--r-- root/root 9282 2021-06-20 19:43 ./usr/include/bamtools/api/BamConstants.h -rw-r--r-- root/root 2754 2021-06-20 19:43 ./usr/include/bamtools/api/BamIndex.h -rw-r--r-- root/root 4242 2021-06-20 19:43 ./usr/include/bamtools/api/BamMultiReader.h -rw-r--r-- root/root 3780 2021-06-20 19:43 ./usr/include/bamtools/api/BamReader.h -rw-r--r-- root/root 1950 2021-06-20 19:43 ./usr/include/bamtools/api/BamWriter.h -rw-r--r-- root/root 2818 2021-06-20 19:43 ./usr/include/bamtools/api/IBamIODevice.h -rw-r--r-- root/root 3491 2021-06-20 19:43 ./usr/include/bamtools/api/SamConstants.h -rw-r--r-- root/root 2842 2021-06-20 19:43 ./usr/include/bamtools/api/SamHeader.h -rw-r--r-- root/root 2261 2021-06-20 19:43 ./usr/include/bamtools/api/SamProgram.h -rw-r--r-- root/root 2822 2021-06-20 19:43 ./usr/include/bamtools/api/SamProgramChain.h -rw-r--r-- root/root 3189 2021-06-20 19:43 ./usr/include/bamtools/api/SamReadGroup.h -rw-r--r-- root/root 2987 2021-06-20 19:43 ./usr/include/bamtools/api/SamReadGroupDictionary.h -rw-r--r-- root/root 2540 2021-06-20 19:43 ./usr/include/bamtools/api/SamSequence.h -rw-r--r-- root/root 2950 2021-06-20 19:43 ./usr/include/bamtools/api/SamSequenceDictionary.h drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/include/bamtools/api/algorithms/ -rw-r--r-- root/root 12403 2021-06-20 19:43 ./usr/include/bamtools/api/algorithms/Sort.h -rw-r--r-- root/root 663 2021-06-20 19:43 ./usr/include/bamtools/api/api_global.h -rw-r--r-- root/root 967 2023-12-15 18:09 ./usr/include/bamtools/api/bamtools_api_export.h drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/include/bamtools/shared/ -rw-r--r-- root/root 2136 2021-06-20 19:43 ./usr/include/bamtools/shared/bamtools_global.h drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/lib/ drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/lib/riscv64-linux-gnu/ -rw-r--r-- root/root 8003068 2023-12-15 18:09 ./usr/lib/riscv64-linux-gnu/libbamtools.a lrwxrwxrwx root/root 0 2023-12-15 18:09 ./usr/lib/riscv64-linux-gnu/libbamtools.so -> libbamtools.so.2.5.2 drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/lib/riscv64-linux-gnu/pkgconfig/ -rw-r--r-- root/root 261 2023-12-15 18:09 ./usr/lib/riscv64-linux-gnu/pkgconfig/bamtools-1.pc drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/ drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/cmake/ drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/cmake/bamtools/ -rw-r--r-- root/root 1574 2023-12-15 18:09 ./usr/share/cmake/bamtools/bamtools-config.cmake drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/doc/ drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/doc/libbamtools-dev/ lrwxrwxrwx root/root 0 2023-12-15 18:09 ./usr/share/doc/libbamtools-dev/changelog.Debian.gz -> ../libbamtools2.5.2/changelog.Debian.gz -rw-r--r-- root/root 1665 2023-12-15 18:09 ./usr/share/doc/libbamtools-dev/copyright libbamtools2.5.2_2.5.2+dfsg-5_riscv64.deb ----------------------------------------- new Debian package, version 2.0. size 173376 bytes: control archive=986 bytes. 985 bytes, 23 lines control 241 bytes, 3 lines md5sums 51 bytes, 1 lines shlibs 75 bytes, 2 lines triggers Package: libbamtools2.5.2 Source: bamtools Version: 2.5.2+dfsg-5 Architecture: riscv64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 404 Depends: libc6 (>= 2.38), libgcc-s1 (>= 4.3), libstdc++6 (>= 13.1), zlib1g (>= 1:1.1.4) Section: libs Priority: optional Multi-Arch: same Homepage: https://github.com/pezmaster31/bamtools/wiki Description: dynamic library for manipulating BAM (genome alignment) files BamTools facilitates research analysis and data management using BAM files. It copes with the enormous amount of data produced by current sequencing technologies that is typically stored in compressed, binary formats that are not easily handled by the text-based parsers commonly used in bioinformatics research. . BamTools provides both a C++ API for BAM file support as well as a command-line toolkit. . This is the runtime library. drwxr-xr-x root/root 0 2023-12-15 18:09 ./ drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/ drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/lib/ drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/lib/riscv64-linux-gnu/ -rw-r--r-- root/root 399336 2023-12-15 18:09 ./usr/lib/riscv64-linux-gnu/libbamtools.so.2.5.2 drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/ drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/doc/ drwxr-xr-x root/root 0 2023-12-15 18:09 ./usr/share/doc/libbamtools2.5.2/ -rw-r--r-- root/root 1469 2023-12-15 18:09 ./usr/share/doc/libbamtools2.5.2/changelog.Debian.gz -rw-r--r-- root/root 1665 2023-12-15 18:09 ./usr/share/doc/libbamtools2.5.2/copyright +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: riscv64 Build Type: any Build-Space: 216828 Build-Time: 561 Distribution: noble-proposed Host Architecture: riscv64 Install-Time: 130 Job: bamtools_2.5.2+dfsg-5.dsc Machine Architecture: riscv64 Package: bamtools Package-Time: 712 Source-Version: 2.5.2+dfsg-5 Space: 216828 Status: successful Version: 2.5.2+dfsg-5 -------------------------------------------------------------------------------- Finished at 2023-12-15T23:33:59Z Build needed 00:11:52, 216828k disk space RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=noble --arch=riscv64 PACKAGEBUILD-27260538 Scanning for processes to kill in build PACKAGEBUILD-27260538