sbuild (Debian sbuild) 0.89.1 (28 April 2025) on carme.larted.org.uk +==============================================================================+ | bwa 0.7.18-1 (amd64) Sun, 17 Aug 2025 09:20:47 +0000 | +==============================================================================+ Package: bwa Version: 0.7.18-1 Source Version: 0.7.18-1 Distribution: perl-5.42-throwaway Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: full I: Setting up the chroot... I: Creating chroot session... I: Setting up log color... +------------------------------------------------------------------------------+ | Chroot Setup Commands Sun, 17 Aug 2025 09:20:49 +0000 | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup bwa_0.7.18-1 perl-5.42-throwaway amd64 ------------------------------------------------------------------------------------------------------------- I: Finished running '/usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup bwa_0.7.18-1 perl-5.42-throwaway amd64'. Finished processing commands. -------------------------------------------------------------------------------- I: Setting up apt archive... +------------------------------------------------------------------------------+ | Update chroot Sun, 17 Aug 2025 09:20:49 +0000 | +------------------------------------------------------------------------------+ Get:1 file:/srv/reprepro perl-5.42 InRelease [3024 B] Get:1 file:/srv/reprepro perl-5.42 InRelease [3024 B] Get:2 file:/srv/reprepro perl-5.42/main amd64 Packages [547 kB] Get:3 http://deb.debian.org/debian unstable InRelease [216 kB] Get:4 http://deb.debian.org/debian sid InRelease [216 kB] Get:5 http://deb.debian.org/debian unstable/main amd64 Packages.diff/Index [63.6 kB] Get:6 http://deb.debian.org/debian sid/main Sources.diff/Index [63.6 kB] Get:7 http://deb.debian.org/debian unstable/main amd64 Packages T-2025-08-17-0805.57-F-2025-08-16-2015.43.pdiff [71.2 kB] Get:7 http://deb.debian.org/debian unstable/main amd64 Packages T-2025-08-17-0805.57-F-2025-08-16-2015.43.pdiff [71.2 kB] Get:8 http://deb.debian.org/debian sid/main Sources T-2025-08-17-0805.57-F-2025-08-16-2015.43.pdiff [56.4 kB] Get:8 http://deb.debian.org/debian sid/main Sources T-2025-08-17-0805.57-F-2025-08-16-2015.43.pdiff [56.4 kB] Fetched 686 kB in 8s (83.9 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: binutils binutils-common binutils-x86-64-linux-gnu init-system-helpers libbinutils libctf-nobfd0 libctf0 libgprofng0 libidn2-0 libldap2 libsframe2 11 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 5687 kB/5881 kB of archives. After this operation, 7168 B of additional disk space will be used. Get:1 file:/srv/reprepro perl-5.42/main amd64 libldap2 amd64 2.6.10+dfsg-1+b1 [194 kB] Get:2 http://deb.debian.org/debian unstable/main amd64 init-system-helpers all 1.69 [39.3 kB] Get:3 http://deb.debian.org/debian unstable/main amd64 libgprofng0 amd64 2.45-4 [810 kB] Get:4 http://deb.debian.org/debian unstable/main amd64 libctf0 amd64 2.45-4 [89.7 kB] Get:5 http://deb.debian.org/debian unstable/main amd64 libctf-nobfd0 amd64 2.45-4 [157 kB] Get:6 http://deb.debian.org/debian unstable/main amd64 binutils-x86-64-linux-gnu amd64 2.45-4 [1042 kB] Get:7 http://deb.debian.org/debian unstable/main amd64 binutils amd64 2.45-4 [266 kB] Get:8 http://deb.debian.org/debian unstable/main amd64 libbinutils amd64 2.45-4 [539 kB] Get:9 http://deb.debian.org/debian unstable/main amd64 binutils-common amd64 2.45-4 [2556 kB] Get:10 http://deb.debian.org/debian unstable/main amd64 libsframe2 amd64 2.45-4 [79.5 kB] Get:11 http://deb.debian.org/debian unstable/main amd64 libidn2-0 amd64 2.3.8-3 [109 kB] Fetched 5687 kB in 0s (123 MB/s) (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 14970 files and directories currently installed.) Preparing to unpack .../init-system-helpers_1.69_all.deb ... Unpacking init-system-helpers (1.69) over (1.68) ... Setting up init-system-helpers (1.69) ... (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 14971 files and directories currently installed.) Preparing to unpack .../0-libgprofng0_2.45-4_amd64.deb ... Unpacking libgprofng0:amd64 (2.45-4) over (2.45-3) ... Preparing to unpack .../1-libctf0_2.45-4_amd64.deb ... Unpacking libctf0:amd64 (2.45-4) over (2.45-3) ... Preparing to unpack .../2-libctf-nobfd0_2.45-4_amd64.deb ... Unpacking libctf-nobfd0:amd64 (2.45-4) over (2.45-3) ... Preparing to unpack .../3-binutils-x86-64-linux-gnu_2.45-4_amd64.deb ... Unpacking binutils-x86-64-linux-gnu (2.45-4) over (2.45-3) ... Preparing to unpack .../4-binutils_2.45-4_amd64.deb ... Unpacking binutils (2.45-4) over (2.45-3) ... Preparing to unpack .../5-libbinutils_2.45-4_amd64.deb ... Unpacking libbinutils:amd64 (2.45-4) over (2.45-3) ... Preparing to unpack .../6-binutils-common_2.45-4_amd64.deb ... Unpacking binutils-common:amd64 (2.45-4) over (2.45-3) ... Preparing to unpack .../7-libsframe2_2.45-4_amd64.deb ... Unpacking libsframe2:amd64 (2.45-4) over (2.45-3) ... Preparing to unpack .../8-libidn2-0_2.3.8-3_amd64.deb ... Unpacking libidn2-0:amd64 (2.3.8-3) over (2.3.8-2) ... Preparing to unpack .../9-libldap2_2.6.10+dfsg-1+b1_amd64.deb ... Unpacking libldap2:amd64 (2.6.10+dfsg-1+b1) over (2.6.10+dfsg-1) ... Setting up libsframe2:amd64 (2.45-4) ... Setting up binutils-common:amd64 (2.45-4) ... Setting up libctf-nobfd0:amd64 (2.45-4) ... Setting up libidn2-0:amd64 (2.3.8-3) ... Setting up libbinutils:amd64 (2.45-4) ... Setting up libldap2:amd64 (2.6.10+dfsg-1+b1) ... Setting up libctf0:amd64 (2.45-4) ... Setting up libgprofng0:amd64 (2.45-4) ... Setting up binutils-x86-64-linux-gnu (2.45-4) ... Setting up binutils (2.45-4) ... Processing triggers for libc-bin (2.41-12) ... +------------------------------------------------------------------------------+ | Fetch source files Sun, 17 Aug 2025 09:21:03 +0000 | +------------------------------------------------------------------------------+ Local sources ------------- /srv/debomatic/incoming/bwa_0.7.18-1.dsc exists in /srv/debomatic/incoming; copying to chroot +------------------------------------------------------------------------------+ | Install package build dependencies Sun, 17 Aug 2025 09:21:03 +0000 | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), zlib1g-dev, build-essential Filtered Build-Depends: debhelper-compat (= 13), zlib1g-dev, build-essential dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/build/bwa-sno9bf/resolver-N4veKY/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/build/bwa-sno9bf/resolver-N4veKY/apt_archive ./ InRelease Get:2 copy:/build/bwa-sno9bf/resolver-N4veKY/apt_archive ./ Release [609 B] Ign:3 copy:/build/bwa-sno9bf/resolver-N4veKY/apt_archive ./ Release.gpg Get:4 copy:/build/bwa-sno9bf/resolver-N4veKY/apt_archive ./ Sources [612 B] Get:5 copy:/build/bwa-sno9bf/resolver-N4veKY/apt_archive ./ Packages [651 B] Fetched 1872 B in 0s (120 kB/s) Reading package lists... Reading package lists... Install main build dependencies (apt-based resolver) ---------------------------------------------------- Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils debhelper dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libdebhelper-perl libelf1t64 libfile-stripnondeterminism-perl libmagic-mgc libmagic1t64 libpipeline1 libtool libuchardet0 libxml2-16 m4 man-db po-debconf sensible-utils zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc dh-make gettext-doc libasprintf-dev libgettextpo-dev gnulib-l10n groff libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx libarchive-cpio-perl libltdl-dev libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils debhelper dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libdebhelper-perl libelf1t64 libfile-stripnondeterminism-perl libmagic-mgc libmagic1t64 libpipeline1 libtool libuchardet0 libxml2-16 m4 man-db po-debconf sbuild-build-depends-main-dummy sensible-utils zlib1g-dev 0 upgraded, 30 newly installed, 0 to remove and 0 not upgraded. Need to get 11.6 MB of archives. After this operation, 41.6 MB of additional disk space will be used. Get:1 copy:/build/bwa-sno9bf/resolver-N4veKY/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [860 B] Get:2 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.25 [25.0 kB] Get:3 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.46-5 [338 kB] Get:4 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.46-5 [109 kB] Get:5 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.46-5 [43.6 kB] Get:6 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.23.1-2+b1 [244 kB] Get:7 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get:8 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-9 [1187 kB] Get:9 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.41.1-1 [94.7 kB] Get:10 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get:11 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.1-1 [1469 kB] Get:12 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-8 [294 kB] Get:13 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3.1 [494 kB] Get:14 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20240727.1 [60.2 kB] Get:15 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.17-4 [862 kB] Get:16 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.23.1-2 [770 kB] Get:17 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.25 [91.6 kB] Get:18 http://deb.debian.org/debian unstable/main amd64 libtool all 2.5.4-4 [539 kB] Get:19 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get:20 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get:21 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get:22 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get:23 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get:24 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get:25 http://deb.debian.org/debian unstable/main amd64 libxml2-16 amd64 2.14.5+dfsg-0.1 [640 kB] Get:26 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.23.1-2+b1 [1680 kB] Get:27 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get:28 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get:29 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.25 [937 kB] Get:30 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Preconfiguring packages ... Fetched 11.6 MB in 0s (135 MB/s) Selecting previously unselected package sensible-utils. (Reading database ... 14972 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.25_all.deb ... Unpacking sensible-utils (0.0.25) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.46-5_amd64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../02-libmagic1t64_1%3a5.46-5_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.46-5) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.46-5_amd64.deb ... Unpacking file (1:5.46-5) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.23.1-2+b1_amd64.deb ... Unpacking gettext-base (0.23.1-2+b1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../05-libuchardet0_0.0.8-1+b2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-9_amd64.deb ... Unpacking groff-base (1.23.0-9) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.41.1-1_amd64.deb ... Unpacking bsdextrautils (2.41.1-1) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../08-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.13.1-1_amd64.deb ... Unpacking man-db (2.13.1-1) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-8_amd64.deb ... Unpacking m4 (1.4.19-8) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.72-3.1_all.deb ... Unpacking autoconf (2.72-3.1) ... 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Selecting previously unselected package gettext. Preparing to unpack .../24-gettext_0.23.1-2+b1_amd64.deb ... Unpacking gettext (0.23.1-2+b1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../25-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../26-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../27-debhelper_13.25_all.deb ... Unpacking debhelper (13.25) ... Selecting previously unselected package zlib1g-dev:amd64. Preparing to unpack .../28-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1+b1_amd64.deb ... Unpacking zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... Selecting previously unselected package sbuild-build-depends-main-dummy. Preparing to unpack .../29-sbuild-build-depends-main-dummy_0.invalid.0_amd64.deb ... Unpacking sbuild-build-depends-main-dummy (0.invalid.0) ... Setting up libpipeline1:amd64 (1.5.8-1) ... Setting up bsdextrautils (2.41.1-1) ... Setting up libmagic-mgc (1:5.46-5) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libxml2-16:amd64 (2.14.5+dfsg-0.1) ... Setting up libdebhelper-perl (13.25) ... Setting up libmagic1t64:amd64 (1:5.46-5) ... Setting up gettext-base (0.23.1-2+b1) ... Setting up m4 (1.4.19-8) ... Setting up file (1:5.46-5) ... Setting up libelf1t64:amd64 (0.192-4) ... Setting up autotools-dev (20240727.1) ... Setting up autopoint (0.23.1-2) ... Setting up autoconf (2.72-3.1) ... Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.25) ... Setting up libuchardet0:amd64 (0.0.8-1+b2) ... Setting up automake (1:1.17-4) ... update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.1-2) ... Setting up gettext (0.23.1-2+b1) ... Setting up libtool (2.5.4-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.14.1-2) ... Setting up groff-base (1.23.0-9) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.25) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.41-12) ... +------------------------------------------------------------------------------+ | Check architectures Sun, 17 Aug 2025 09:21:10 +0000 | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any) +------------------------------------------------------------------------------+ | Build environment Sun, 17 Aug 2025 09:21:10 +0000 | +------------------------------------------------------------------------------+ Kernel: Linux 6.12.25-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.25-1 (2025-04-25) amd64 (x86_64) Toolchain package versions: binutils_2.45-4 dpkg-dev_1.22.21 g++-14_14.3.0-5 gcc-14_14.3.0-5 libc6-dev_2.41-12 libstdc++-14-dev_14.3.0-5 libstdc++6_15.2.0-1 linux-libc-dev_6.12.38-1 Package versions: adduser_3.152 apt_3.1.4 autoconf_2.72-3.1 automake_1:1.17-4 autopoint_0.23.1-2 autotools-dev_20240727.1 base-files_14 base-passwd_3.6.7 bash_5.2.37-2+b5 binutils_2.45-4 binutils-common_2.45-4 binutils-gold_2.44-2 binutils-gold-x86-64-linux-gnu_2.44-2 binutils-x86-64-linux-gnu_2.45-4 bsdextrautils_2.41.1-1 bsdutils_1:2.41.1-1 build-essential_12.12 bzip2_1.0.8-6 coreutils_9.7-3 cpp_4:14.2.0-1 cpp-14_14.3.0-5 cpp-14-x86-64-linux-gnu_14.3.0-5 cpp-x86-64-linux-gnu_4:14.2.0-1 dash_0.5.12-12 debconf_1.5.91 debhelper_13.25 debian-archive-keyring_2025.1 debianutils_5.23.2 dh-autoreconf_20 dh-strip-nondeterminism_1.14.1-2 diffutils_1:3.10-4 dirmngr_2.4.8-2 dpkg_1.22.21 dpkg-dev_1.22.21 dwz_0.15-1+b1 eatmydata_131-2 file_1:5.46-5 findutils_4.10.0-3 g++_4:14.2.0-1 g++-14_14.3.0-5 g++-14-x86-64-linux-gnu_14.3.0-5 g++-x86-64-linux-gnu_4:14.2.0-1 gcc_4:14.2.0-1 gcc-14_14.3.0-5 gcc-14-base_14.3.0-5 gcc-14-x86-64-linux-gnu_14.3.0-5 gcc-15-base_15.2.0-1 gcc-x86-64-linux-gnu_4:14.2.0-1 gettext_0.23.1-2+b1 gettext-base_0.23.1-2+b1 gnupg_2.4.8-2 gnupg-l10n_2.4.8-2 gpg_2.4.8-2 gpg-agent_2.4.8-2 gpgconf_2.4.8-2 gpgsm_2.4.8-2 grep_3.11-4 groff-base_1.23.0-9 gzip_1.13-1 hostname_3.25 init-system-helpers_1.69 intltool-debian_0.35.0+20060710.6 libacl1_2.3.2-2+b1 libapt-pkg7.0_3.1.4 libarchive-zip-perl_1.68-1 libasan8_15.2.0-1 libassuan9_3.0.2-2 libatomic1_15.2.0-1 libattr1_1:2.5.2-3 libaudit-common_1:4.0.5-1 libaudit1_1:4.0.5-1 libbinutils_2.45-4 libblkid1_2.41.1-1 libbsd0_0.12.2-2 libbz2-1.0_1.0.8-6 libc-bin_2.41-12 libc-dev-bin_2.41-12 libc6_2.41-12 libc6-dev_2.41-12 libcap-ng0_0.8.5-4+b1 libcap2_1:2.75-10+b1 libcc1-0_15.2.0-1 libcrypt-dev_1:4.4.38-1 libcrypt1_1:4.4.38-1 libctf-nobfd0_2.45-4 libctf0_2.45-4 libdb5.3t64_5.3.28+dfsg2-9 libdebconfclient0_0.280 libdebhelper-perl_13.25 libdpkg-perl_1.22.21 libeatmydata1_131-2+b1 libelf1t64_0.192-4 libffi8_3.4.8-2 libfile-stripnondeterminism-perl_1.14.1-2 libgcc-14-dev_14.3.0-5 libgcc-s1_15.2.0-1 libgcrypt20_1.11.2-2 libgdbm-compat4t64_1.24-2 libgdbm6t64_1.24-2 libgmp10_2:6.3.0+dfsg-3 libgnutls30t64_3.8.10-2 libgomp1_15.2.0-1 libgpg-error0_1.55-2 libgprofng0_2.45-4 libhogweed6t64_3.10.1-1 libhwasan0_15.2.0-1 libidn2-0_2.3.8-3 libisl23_0.27-1 libitm1_15.2.0-1 libjansson4_2.14-2+b3 libksba8_1.6.7-2+b1 liblastlog2-2_2.41.1-1 libldap2_2.6.10+dfsg-1+b1 liblsan0_15.2.0-1 liblz4-1_1.10.0-4 liblzma5_5.8.1-1 libmagic-mgc_1:5.46-5 libmagic1t64_1:5.46-5 libmd0_1.1.0-2+b1 libmount1_2.41.1-1 libmpc3_1.3.1-1+b3 libmpfr6_4.2.2-1 libncursesw6_6.5+20250216-2 libnettle8t64_3.10.1-1 libnpth0t64_1.8-3 libp11-kit0_0.25.5-3 libpam-modules_1.7.0-5 libpam-modules-bin_1.7.0-5 libpam-runtime_1.7.0-5 libpam0g_1.7.0-5 libpcre2-8-0_10.45-1 libperl5.40_5.40.1-6 libperl5.42_5.42.0-1 libpipeline1_1.5.8-1 libquadmath0_15.2.0-1 libreadline8t64_8.2-6 libsasl2-2_2.1.28+dfsg1-9 libsasl2-modules-db_2.1.28+dfsg1-9 libseccomp2_2.6.0-2 libselinux1_3.8.1-1 libsemanage-common_3.8.1-1 libsemanage2_3.8.1-1 libsepol2_3.8.1-1 libsframe2_2.45-4 libsmartcols1_2.41.1-1 libsqlite3-0_3.46.1-7 libssl3t64_3.5.2-1 libstdc++-14-dev_14.3.0-5 libstdc++6_15.2.0-1 libsystemd0_258~rc2-2 libtasn1-6_4.20.0-2 libtinfo6_6.5+20250216-2 libtool_2.5.4-4 libtsan2_15.2.0-1 libubsan1_15.2.0-1 libuchardet0_0.0.8-1+b2 libudev1_258~rc2-2 libunistring5_1.3-2 libuuid1_2.41.1-1 libxml2-16_2.14.5+dfsg-0.1 libxxhash0_0.8.3-2 libzstd1_1.5.7+dfsg-1 linux-libc-dev_6.12.38-1 login.defs_1:4.17.4-2 m4_1.4.19-8 make_4.4.1-2 man-db_2.13.1-1 mawk_1.3.4.20250131-1 ncurses-base_6.5+20250216-2 ncurses-bin_6.5+20250216-2 openssl-provider-legacy_3.5.2-1 passwd_1:4.17.4-2 patch_2.8-2 perl_5.42.0-1 perl-base_5.42.0-1 perl-modules-5.40_5.40.1-6 perl-modules-5.42_5.42.0-1 pinentry-curses_1.3.2-3 po-debconf_1.0.21+nmu1 readline-common_8.2-6 rpcsvc-proto_1.4.3-1 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.9-2 sensible-utils_0.0.25 sqv_1.3.0-3 sysvinit-utils_3.14-4 tar_1.35+dfsg-3.1 util-linux_2.41.1-1 xz-utils_5.8.1-1 zlib1g_1:1.3.dfsg+really1.3.1-1+b1 zlib1g-dev_1:1.3.dfsg+really1.3.1-1+b1 +------------------------------------------------------------------------------+ | Build Sun, 17 Aug 2025 09:21:10 +0000 | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: bwa Binary: bwa, libbwa-dev Architecture: any Version: 0.7.18-1 Maintainer: Debian Med Packaging Team Uploaders: Charles Plessy , Andreas Tille , Carlos Borroto , Ognyan Kulev , Michael R. Crusoe Homepage: https://bio-bwa.sourceforge.net/ Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/bwa Vcs-Git: https://salsa.debian.org/med-team/bwa.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), zlib1g-dev Package-List: bwa deb science optional arch=any libbwa-dev deb libdevel optional arch=any Checksums-Sha1: a79dbcac2e085ac58beb137ed4917f71c8e0220c 238036 bwa_0.7.18.orig.tar.gz 8a543f0711dcb05a3964a0fa62e4ff586cdbfb7c 10056 bwa_0.7.18-1.debian.tar.xz Checksums-Sha256: 194788087f7b9a77c0114aa481b2ef21439f6abab72488c83917302e8d0e7870 238036 bwa_0.7.18.orig.tar.gz 4bd079669d2433711b20d303648923c4b96e0e68085574f220dc830ced8be171 10056 bwa_0.7.18-1.debian.tar.xz Files: f1c99c98f1c1cc7081f31394d95b0d87 238036 bwa_0.7.18.orig.tar.gz 11dd2c9dbde5a57d2203fda0f9aceb51 10056 bwa_0.7.18-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEck1gkzcRPHEFUNdHPCZ2P2xn5uIFAmbcP/MACgkQPCZ2P2xn 5uI5iRAAj5hHQBAuvKyQWVDYanHZoEzYFVsihFp4GScJzjrX/mhtzHRyApXUvrHh hQsYin3pZRIw0K3nJKj31gXztemrTVXQ2asM2VT++j7oUwAaOsA01ZdBwgkbl8M3 eHdln9kRU4HU2R4MtZHJkzMU3Re+VQuXsSZIWJAb55a3Dy6vbwHK9cBBOWtHZCiR UeXm7tDlYisXSIWqN+9UVmZdNekmwPXLTDLY4vq0CQzJQ5SzqUJImuTRE2rOZppE uwMBoGer3MXLh00e754Cc+6Qv+o4R/Jk0zlEfZ89k9H4hB69AuigRbg5ZO1dWAtA 8Gwp+Y+RccbASkOZcpxNqnrpgMmcboTkh8mOocLqVOrkdUfbROGr6tsTjvmq/ARc jTGsObikNMtWwWUZHlihK58SMCTOMSlmNKXavoGVrFepwyXhe5m6Wbdi1v5zOH0a oQtmlyLZBu+qnqPkB4zOKM7fjFT/jUerU51jFQawC51KUGvf9g1W3weJDotZdyU0 BZzDL5/c9uJXmFBmt2eEQVB5bpbqGGk93lqlKZSHH78nooMmwzfcyY1TSZZ+vs1O ReeCrC+j2BoBTl6d58C7rTqIhXZZkUJaRyfp3u/LQ9tOwSdce/x+jUsxfDWJI+6J 2g5wLk/O38jCi2uIpTWbpm5QbQWh186gia+hs7bGQQNTeGYUKH4= =lEdE -----END PGP SIGNATURE----- dpkg-source: warning: cannot verify inline signature for ./bwa_0.7.18-1.dsc: no acceptable signature found dpkg-source: info: extracting bwa in /build/bwa-sno9bf/bwa-0.7.18 dpkg-source: info: unpacking bwa_0.7.18.orig.tar.gz dpkg-source: info: unpacking bwa_0.7.18-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying fix_heap_block_overrun dpkg-source: info: applying fix_build_on_freebsd.patch dpkg-source: info: applying spelling dpkg-source: info: applying hurd Check disk space ---------------- Sufficient free space for build +------------------------------------------------------------------------------+ | Starting Timed Build Commands Sun, 17 Aug 2025 09:21:11 +0000 | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/starting-build-commands/no-network bwa_0.7.18-1 perl-5.42-throwaway amd64 ------------------------------------------------------------------------------------------------------------- I: Finished running '/usr/share/debomatic/sbuildcommands/starting-build-commands/no-network bwa_0.7.18-1 perl-5.42-throwaway amd64'. Finished processing commands. -------------------------------------------------------------------------------- User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf HOME=/sbuild-nonexistent LC_ALL=C.UTF-8 LD_LIBRARY_PATH=/usr/lib/libeatmydata LD_PRELOAD=libeatmydata.so LOGNAME=debomatic PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games PWD=/build/bwa-sno9bf/bwa-0.7.18 SCHROOT_ALIAS_NAME=perl-5.42-throwaway-amd64-debomatic SCHROOT_CHROOT_NAME=perl-5.42-amd64-debomatic SCHROOT_COMMAND=env SCHROOT_GID=110 SCHROOT_GROUP=sbuild SCHROOT_SESSION_ID=perl-5.42-amd64-debomatic-e26c331f-8a6c-445a-b9c7-fd1262ae1e49 SCHROOT_UID=1002 SCHROOT_USER=debomatic SHELL=/bin/sh USER=debomatic dpkg-buildpackage ----------------- Command: dpkg-buildpackage --sanitize-env -us -uc -Zxz dpkg-buildpackage: info: source package bwa dpkg-buildpackage: info: source version 0.7.18-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Michael R. Crusoe dpkg-source -Zxz --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_auto_clean make -j2 clean make[1]: Entering directory '/build/bwa-sno9bf/bwa-0.7.18' rm -f gmon.out *.o a.out bwa *~ *.a make[1]: Leaving directory '/build/bwa-sno9bf/bwa-0.7.18' dh_clean dpkg-source -Zxz -b . dpkg-source: info: using source format '3.0 (quilt)' dpkg-source: info: building bwa using existing ./bwa_0.7.18.orig.tar.gz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: building bwa in bwa_0.7.18-1.debian.tar.xz dpkg-source: info: building bwa in bwa_0.7.18-1.dsc debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory '/build/bwa-sno9bf/bwa-0.7.18' dh_auto_build -- CFLAGS="-Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now" DFLAGS="-DHAVE_PTHREAD" make -j2 "INSTALL=install --strip-program=true" "CFLAGS=-Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now" DFLAGS=-DHAVE_PTHREAD make[2]: Entering directory '/build/bwa-sno9bf/bwa-0.7.18' gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 utils.c -o utils.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 kthread.c -o kthread.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 kstring.c -o kstring.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 ksw.c -o ksw.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 bwt.c -o bwt.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 bntseq.c -o bntseq.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 bwa.c -o bwa.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 bwamem.c -o bwamem.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 bwamem_pair.c -o bwamem_pair.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 bwamem_extra.c -o bwamem_extra.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 malloc_wrap.c -o malloc_wrap.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 QSufSort.c -o QSufSort.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 bwt_gen.c -o bwt_gen.o bwt_gen.c: In function ‘BWTIncBuildRelativeRank’: bwt_gen.c:879:17: warning: variable ‘oldInverseSa0RelativeRank’ set but not used [-Wunused-but-set-variable] 879 | bgint_t oldInverseSa0RelativeRank = 0; | ^~~~~~~~~~~~~~~~~~~~~~~~~ bwt_gen.c: In function ‘BWTIncMergeBwt’: bwt_gen.c:953:22: warning: variable ‘bitsInWordMinusBitPerChar’ set but not used [-Wunused-but-set-variable] 953 | unsigned int bitsInWordMinusBitPerChar; | ^~~~~~~~~~~~~~~~~~~~~~~~~ gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 rope.c -o rope.o rope.c: In function ‘rope_restore_node’: rope.c:282:9: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 282 | fread(&is_bottom, 1, 1, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ rope.c:283:9: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 283 | fread(&n, 2, 1, fp); | ^~~~~~~~~~~~~~~~~~~ rope.c:291:25: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 291 | fread(p[i].c, 8, 6, fp); | ^~~~~~~~~~~~~~~~~~~~~~~ rope.c:292:25: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 292 | fread(q, 2, 1, fp); | ^~~~~~~~~~~~~~~~~~ rope.c:293:25: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 293 | fread(q + 1, 1, *q, fp); | ^~~~~~~~~~~~~~~~~~~~~~~ rope.c: In function ‘rope_restore’: rope.c:312:9: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 312 | fread(&r->max_nodes, 4, 1, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ rope.c:313:9: warning: ignoring return value of ‘fread’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 313 | fread(&r->block_len, 4, 1, fp); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 rle.c -o rle.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 is.c -o is.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 bwtindex.c -o bwtindex.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 bwashm.c -o bwashm.o bwashm.c: In function ‘bwa_shm_stage’: bwashm.c:33:9: warning: ignoring return value of ‘ftruncate’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 33 | ftruncate(shmid, BWA_CTL_SIZE); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ bwashm.c:70:9: warning: ignoring return value of ‘ftruncate’ declared with attribute ‘warn_unused_result’ [-Wunused-result] 70 | ftruncate(shmid, idx->l_mem); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 bwase.c -o bwase.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 bwaseqio.c -o bwaseqio.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 bwtgap.c -o bwtgap.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 bwtaln.c -o bwtaln.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 bamlite.c -o bamlite.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 bwape.c -o bwape.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 kopen.c -o kopen.o In file included from /usr/include/string.h:548, from kopen.c:6: In function ‘strncpy’, inlined from ‘cmd2argv’ at kopen.c:248:2, inlined from ‘kopen’ at kopen.c:306:13: /usr/include/x86_64-linux-gnu/bits/string_fortified.h:100:10: warning: ‘__builtin_strncpy’ specified bound between 18446744071562067969 and 18446744073709551615 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=] 100 | return __builtin___strncpy_chk (__dest, __src, __len, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 101 | __glibc_objsize (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘cmd2argv’, inlined from ‘kopen’ at kopen.c:306:13: kopen.c:247:32: warning: argument 1 range [18446744071562067970, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 247 | argv[0] = str = (char*)calloc(end - beg + 1, 1); | ^~~~~~~~~~~~~~~~~~~~~~~~ In file included from kopen.c:7: /usr/include/stdlib.h: In function ‘kopen’: /usr/include/stdlib.h:675:14: note: in a call to allocation function ‘calloc’ declared here 675 | extern void *calloc (size_t __nmemb, size_t __size) | ^~~~~~ gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 pemerge.c -o pemerge.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 maxk.c -o maxk.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 bwtsw2_core.c -o bwtsw2_core.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 bwtsw2_main.c -o bwtsw2_main.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 bwtsw2_aux.c -o bwtsw2_aux.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 bwt_lite.c -o bwt_lite.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 bwtsw2_chain.c -o bwtsw2_chain.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 fastmap.c -o fastmap.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 bwtsw2_pair.c -o bwtsw2_pair.o gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -DHAVE_PTHREAD -Wdate-time -D_FORTIFY_SOURCE=2 main.c -o main.o ar -csru libbwa.a utils.o kthread.o kstring.o ksw.o bwt.o bntseq.o bwa.o bwamem.o bwamem_pair.o bwamem_extra.o malloc_wrap.o QSufSort.o bwt_gen.o rope.o rle.o is.o bwtindex.o ar: `u' modifier ignored since `D' is the default (see `U') gcc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-sno9bf/bwa-0.7.18=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,-z,relro -Wl,-z,now bwashm.o bwase.o bwaseqio.o bwtgap.o bwtaln.o bamlite.o bwape.o kopen.o pemerge.o maxk.o bwtsw2_core.o bwtsw2_main.o bwtsw2_aux.o bwt_lite.o bwtsw2_chain.o fastmap.o bwtsw2_pair.o main.o -o bwa -L. -lbwa -lm -lz -lpthread -lrt make[2]: Leaving directory '/build/bwa-sno9bf/bwa-0.7.18' make[1]: Leaving directory '/build/bwa-sno9bf/bwa-0.7.18' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install debian/rules override_dh_install make[1]: Entering directory '/build/bwa-sno9bf/bwa-0.7.18' dh_install for pl in `grep -Rl '#!/usr/bin/env[[:space:]]\+perl' debian/*/usr/*` ; do \ sed -i '1s?^#!/usr/bin/env[[:space:]]\+perl?#!/usr/bin/perl?' ${pl} ; \ done make[1]: Leaving directory '/build/bwa-sno9bf/bwa-0.7.18' dh_installdocs debian/rules override_dh_installchangelogs make[1]: Entering directory '/build/bwa-sno9bf/bwa-0.7.18' dh_installchangelogs NEWS.md make[1]: Leaving directory '/build/bwa-sno9bf/bwa-0.7.18' dh_installexamples dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb debian/rules override_dh_gencontrol make[1]: Entering directory '/build/bwa-sno9bf/bwa-0.7.18' dpkg-query: no packages found matching libsimde-dev dh_gencontrol -- -Vsimde:Built-Using="" dpkg-gencontrol: warning: package bwa: substitution variable ${perl:Depends} unused, but is defined dpkg-gencontrol: warning: package bwa: substitution variable ${perl:Depends} unused, but is defined make[1]: Leaving directory '/build/bwa-sno9bf/bwa-0.7.18' dh_md5sums dh_builddeb dpkg-deb: building package 'libbwa-dev' in '../libbwa-dev_0.7.18-1_amd64.deb'. dpkg-deb: building package 'bwa' in '../bwa_0.7.18-1_amd64.deb'. dpkg-deb: building package 'bwa-dbgsym' in '../bwa-dbgsym_0.7.18-1_amd64.deb'. dpkg-genbuildinfo -O../bwa_0.7.18-1_amd64.buildinfo dpkg-genchanges -O../bwa_0.7.18-1_amd64.changes dpkg-genchanges: info: including full source code in upload dpkg-source -Zxz --after-build . dpkg-buildpackage: info: full upload (original source is included) -------------------------------------------------------------------------------- Build finished at 2025-08-17T09:21:30Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes Sun, 17 Aug 2025 09:21:30 +0000 | +------------------------------------------------------------------------------+ bwa_0.7.18-1_amd64.changes: --------------------------- Format: 1.8 Date: Sat, 07 Sep 2024 13:58:12 +0200 Source: bwa Binary: bwa bwa-dbgsym libbwa-dev Architecture: source amd64 Version: 0.7.18-1 Distribution: perl-5.42-throwaway Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Michael R. Crusoe Description: bwa - Burrows-Wheeler Aligner libbwa-dev - Burrows-Wheeler Aligner source files Changes: bwa (0.7.18-1) unstable; urgency=medium . * New upstream version * Standards-Version: 4.6.2 (routine-update) Use secure URI in Homepage field. * Removed 2 patches applied upstream (CVE-2019-10269, gcc10). Removed no-longer-needed SIMDe patch. 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+------------------------------------------------------------------------------+ Format: 1.0 Source: bwa Binary: bwa bwa-dbgsym libbwa-dev Architecture: amd64 source Version: 0.7.18-1 Checksums-Md5: 7c139c9645a348147d4fd4ee73f81465 1220 bwa_0.7.18-1.dsc f55e8bbfa903d436abfb3ec35902db3d 456208 bwa-dbgsym_0.7.18-1_amd64.deb 8d96664b4982daea9d6b1c3b056ec602 211924 bwa_0.7.18-1_amd64.deb a2f3cba1dc3ff0edd63578d52e6d0246 156152 libbwa-dev_0.7.18-1_amd64.deb Checksums-Sha1: c787050127a73433d9fffd5d6f5a1dabde1b2688 1220 bwa_0.7.18-1.dsc 3cfb2c6c6e6c7bb42f0f29dab6bf158adf3db973 456208 bwa-dbgsym_0.7.18-1_amd64.deb 1f4ad16253118d0fab1cefee940da7d7c3854578 211924 bwa_0.7.18-1_amd64.deb 50b91157cf3cd78abe08415e970dc6d519d5c0e5 156152 libbwa-dev_0.7.18-1_amd64.deb Checksums-Sha256: 5dd1f99d6cd6ca158a1cdea85b8fe17897b342d89333f1bc5fccbe8531c2c58d 1220 bwa_0.7.18-1.dsc 1e7c01798867c3fb3fe18d18a0ce4024c3b78b614f05a03d9a49c379d6b51d02 456208 bwa-dbgsym_0.7.18-1_amd64.deb 24b0b7a9027c72b0e02d31ac260924019156995196d86a486038b8dcca32fc18 211924 bwa_0.7.18-1_amd64.deb 79308fb5bf5e6a184e930a583b94a65debf603e9990c1ccb9e4eada2a83aba18 156152 libbwa-dev_0.7.18-1_amd64.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Sun, 17 Aug 2025 09:21:30 +0000 Build-Path: /build/bwa-sno9bf/bwa-0.7.18 Build-Tainted-By: usr-local-has-programs Installed-Build-Depends: autoconf (= 2.72-3.1), automake (= 1:1.17-4), autopoint (= 0.23.1-2), autotools-dev (= 20240727.1), base-files (= 14), base-passwd (= 3.6.7), bash (= 5.2.37-2+b5), binutils (= 2.45-4), binutils-common (= 2.45-4), binutils-x86-64-linux-gnu (= 2.45-4), bsdextrautils (= 2.41.1-1), bsdutils (= 1:2.41.1-1), build-essential (= 12.12), bzip2 (= 1.0.8-6), coreutils (= 9.7-3), cpp (= 4:14.2.0-1), cpp-14 (= 14.3.0-5), cpp-14-x86-64-linux-gnu (= 14.3.0-5), cpp-x86-64-linux-gnu (= 4:14.2.0-1), dash (= 0.5.12-12), debconf (= 1.5.91), debhelper (= 13.25), debianutils (= 5.23.2), dh-autoreconf (= 20), dh-strip-nondeterminism (= 1.14.1-2), diffutils (= 1:3.10-4), dpkg (= 1.22.21), dpkg-dev (= 1.22.21), dwz (= 0.15-1+b1), file (= 1:5.46-5), findutils (= 4.10.0-3), g++ (= 4:14.2.0-1), g++-14 (= 14.3.0-5), g++-14-x86-64-linux-gnu (= 14.3.0-5), g++-x86-64-linux-gnu (= 4:14.2.0-1), gcc (= 4:14.2.0-1), gcc-14 (= 14.3.0-5), gcc-14-base (= 14.3.0-5), gcc-14-x86-64-linux-gnu (= 14.3.0-5), gcc-15-base (= 15.2.0-1), gcc-x86-64-linux-gnu (= 4:14.2.0-1), gettext (= 0.23.1-2+b1), gettext-base (= 0.23.1-2+b1), grep (= 3.11-4), groff-base (= 1.23.0-9), gzip (= 1.13-1), hostname (= 3.25), init-system-helpers (= 1.69), intltool-debian (= 0.35.0+20060710.6), libacl1 (= 2.3.2-2+b1), libarchive-zip-perl (= 1.68-1), libasan8 (= 15.2.0-1), libatomic1 (= 15.2.0-1), libattr1 (= 1:2.5.2-3), libaudit-common (= 1:4.0.5-1), libaudit1 (= 1:4.0.5-1), libbinutils (= 2.45-4), libblkid1 (= 2.41.1-1), libbz2-1.0 (= 1.0.8-6), libc-bin (= 2.41-12), libc-dev-bin (= 2.41-12), libc6 (= 2.41-12), libc6-dev (= 2.41-12), libcap-ng0 (= 0.8.5-4+b1), libcap2 (= 1:2.75-10+b1), libcc1-0 (= 15.2.0-1), libcrypt-dev (= 1:4.4.38-1), libcrypt1 (= 1:4.4.38-1), libctf-nobfd0 (= 2.45-4), libctf0 (= 2.45-4), libdb5.3t64 (= 5.3.28+dfsg2-9), libdebconfclient0 (= 0.280), libdebhelper-perl (= 13.25), libdpkg-perl (= 1.22.21), libelf1t64 (= 0.192-4), libfile-stripnondeterminism-perl (= 1.14.1-2), libgcc-14-dev (= 14.3.0-5), libgcc-s1 (= 15.2.0-1), libgdbm-compat4t64 (= 1.24-2), libgdbm6t64 (= 1.24-2), libgmp10 (= 2:6.3.0+dfsg-3), libgomp1 (= 15.2.0-1), libgprofng0 (= 2.45-4), libhwasan0 (= 15.2.0-1), libisl23 (= 0.27-1), libitm1 (= 15.2.0-1), libjansson4 (= 2.14-2+b3), liblastlog2-2 (= 2.41.1-1), liblsan0 (= 15.2.0-1), liblzma5 (= 5.8.1-1), libmagic-mgc (= 1:5.46-5), libmagic1t64 (= 1:5.46-5), libmd0 (= 1.1.0-2+b1), libmount1 (= 2.41.1-1), libmpc3 (= 1.3.1-1+b3), libmpfr6 (= 4.2.2-1), libpam-modules (= 1.7.0-5), libpam-modules-bin (= 1.7.0-5), libpam-runtime (= 1.7.0-5), libpam0g (= 1.7.0-5), libpcre2-8-0 (= 10.45-1), libperl5.42 (= 5.42.0-1), libpipeline1 (= 1.5.8-1), libquadmath0 (= 15.2.0-1), libseccomp2 (= 2.6.0-2), libselinux1 (= 3.8.1-1), libsframe2 (= 2.45-4), libsmartcols1 (= 2.41.1-1), libsqlite3-0 (= 3.46.1-7), libssl3t64 (= 3.5.2-1), libstdc++-14-dev (= 14.3.0-5), libstdc++6 (= 15.2.0-1), libsystemd0 (= 258~rc2-2), libtinfo6 (= 6.5+20250216-2), libtool (= 2.5.4-4), libtsan2 (= 15.2.0-1), libubsan1 (= 15.2.0-1), libuchardet0 (= 0.0.8-1+b2), libudev1 (= 258~rc2-2), libunistring5 (= 1.3-2), libuuid1 (= 2.41.1-1), libxml2-16 (= 2.14.5+dfsg-0.1), libzstd1 (= 1.5.7+dfsg-1), linux-libc-dev (= 6.12.38-1), m4 (= 1.4.19-8), make (= 4.4.1-2), man-db (= 2.13.1-1), mawk (= 1.3.4.20250131-1), ncurses-base (= 6.5+20250216-2), ncurses-bin (= 6.5+20250216-2), openssl-provider-legacy (= 3.5.2-1), patch (= 2.8-2), perl (= 5.42.0-1), perl-base (= 5.42.0-1), perl-modules-5.42 (= 5.42.0-1), po-debconf (= 1.0.21+nmu1), rpcsvc-proto (= 1.4.3-1), sed (= 4.9-2), sensible-utils (= 0.0.25), sysvinit-utils (= 3.14-4), tar (= 1.35+dfsg-3.1), util-linux (= 2.41.1-1), xz-utils (= 5.8.1-1), zlib1g (= 1:1.3.dfsg+really1.3.1-1+b1), zlib1g-dev (= 1:1.3.dfsg+really1.3.1-1+b1) Environment: DEB_BUILD_OPTIONS="parallel=2" LANG="C.UTF-8" LC_COLLATE="C.UTF-8" LC_CTYPE="C.UTF-8" LD_LIBRARY_PATH="/usr/lib/libeatmydata" SOURCE_DATE_EPOCH="1725710292" +------------------------------------------------------------------------------+ | Package contents Sun, 17 Aug 2025 09:21:31 +0000 | +------------------------------------------------------------------------------+ bwa-dbgsym_0.7.18-1_amd64.deb ----------------------------- new Debian package, version 2.0. size 456208 bytes: control archive=528 bytes. 356 bytes, 12 lines control 106 bytes, 1 lines md5sums Package: bwa-dbgsym Source: bwa Version: 0.7.18-1 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 529 Depends: bwa (= 0.7.18-1) Section: debug Priority: optional Description: debug symbols for bwa Build-Ids: 31104741df225271e77d9db8e136cee50430b0f6 drwxr-xr-x root/root 0 2024-09-07 11:58 ./ drwxr-xr-x root/root 0 2024-09-07 11:58 ./usr/ drwxr-xr-x root/root 0 2024-09-07 11:58 ./usr/lib/ drwxr-xr-x root/root 0 2024-09-07 11:58 ./usr/lib/debug/ drwxr-xr-x root/root 0 2024-09-07 11:58 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2024-09-07 11:58 ./usr/lib/debug/.build-id/31/ -rw-r--r-- root/root 531104 2024-09-07 11:58 ./usr/lib/debug/.build-id/31/104741df225271e77d9db8e136cee50430b0f6.debug drwxr-xr-x root/root 0 2024-09-07 11:58 ./usr/share/ drwxr-xr-x root/root 0 2024-09-07 11:58 ./usr/share/doc/ lrwxrwxrwx root/root 0 2024-09-07 11:58 ./usr/share/doc/bwa-dbgsym -> bwa bwa_0.7.18-1_amd64.deb ---------------------- new Debian package, version 2.0. size 211924 bytes: control archive=1288 bytes. 985 bytes, 22 lines control 916 bytes, 14 lines md5sums Package: bwa Version: 0.7.18-1 Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 459 Depends: libc6 (>= 2.34), zlib1g (>= 1:1.1.4) Recommends: perl Suggests: samtools Section: science Priority: optional Homepage: https://bio-bwa.sourceforge.net/ Description: Burrows-Wheeler Aligner BWA is a software package for mapping low-divergent sequences against a large reference genome, such as the human genome. It consists of three algorithms: BWA-backtrack, BWA-SW and BWA-MEM. The first algorithm is designed for Illumina sequence reads up to 100bp, while the rest two for longer sequences ranged from 70bp to 1Mbp. BWA-MEM and BWA-SW share similar features such as long-read support and split alignment, but BWA-MEM, which is the latest, is generally recommended for high-quality queries as it is faster and more accurate. BWA-MEM also has better performance than BWA-backtrack for 70-100bp Illumina reads. drwxr-xr-x root/root 0 2024-09-07 11:58 ./ drwxr-xr-x root/root 0 2024-09-07 11:58 ./usr/ drwxr-xr-x root/root 0 2024-09-07 11:58 ./usr/bin/ -rwxr-xr-x root/root 408240 2024-09-07 11:58 ./usr/bin/bwa drwxr-xr-x root/root 0 2024-09-07 11:58 ./usr/share/ drwxr-xr-x root/root 0 2024-09-07 11:58 ./usr/share/bash-completion/ drwxr-xr-x root/root 0 2024-09-07 11:58 ./usr/share/bash-completion/completions/ -rw-r--r-- root/root 384 2024-04-16 08:41 ./usr/share/bash-completion/completions/bwa drwxr-xr-x root/root 0 2024-09-07 11:58 ./usr/share/bwa/ -rwxr-xr-x root/root 613 2024-09-07 11:58 ./usr/share/bwa/qualfa2fq.pl -rwxr-xr-x root/root 727 2024-09-07 11:58 ./usr/share/bwa/xa2multi.pl drwxr-xr-x root/root 0 2024-09-07 11:58 ./usr/share/doc/ drwxr-xr-x root/root 0 2024-09-07 11:58 ./usr/share/doc/bwa/ -rw-r--r-- root/root 4216 2024-04-15 02:53 ./usr/share/doc/bwa/README-alt.md.gz -rw-r--r-- root/root 3848 2024-04-15 02:53 ./usr/share/doc/bwa/README.md.gz -rw-r--r-- root/root 945 2024-09-07 11:58 ./usr/share/doc/bwa/changelog.Debian.gz -rw-r--r-- root/root 14294 2024-09-07 11:58 ./usr/share/doc/bwa/changelog.gz -rw-r--r-- root/root 4397 2024-09-07 11:58 ./usr/share/doc/bwa/copyright drwxr-xr-x root/root 0 2024-09-07 11:58 ./usr/share/doc/bwa/examples/ -rw-r--r-- root/root 96 2024-04-16 08:41 ./usr/share/doc/bwa/examples/read1.fq -rw-r--r-- root/root 96 2024-04-16 08:41 ./usr/share/doc/bwa/examples/read2.fq -rw-r--r-- root/root 384 2024-04-16 08:41 ./usr/share/doc/bwa/examples/reads.fq -rw-r--r-- root/root 192 2024-04-16 08:41 ./usr/share/doc/bwa/examples/ref.fa drwxr-xr-x root/root 0 2024-09-07 11:58 ./usr/share/man/ drwxr-xr-x root/root 0 2024-09-07 11:58 ./usr/share/man/man1/ -rw-r--r-- root/root 10592 2024-09-07 11:58 ./usr/share/man/man1/bwa.1.gz libbwa-dev_0.7.18-1_amd64.deb ----------------------------- new Debian package, version 2.0. size 156152 bytes: control archive=1632 bytes. 1025 bytes, 23 lines control 1682 bytes, 28 lines md5sums Package: libbwa-dev Source: bwa Version: 0.7.18-1 Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 482 Suggests: samtools Section: libdevel Priority: optional Homepage: https://bio-bwa.sourceforge.net/ Description: Burrows-Wheeler Aligner source files BWA is a software package for mapping low-divergent sequences against a large reference genome, such as the human genome. It consists of three algorithms: BWA-backtrack, BWA-SW and BWA-MEM. The first algorithm is designed for Illumina sequence reads up to 100bp, while the rest two for longer sequences ranged from 70bp to 1Mbp. BWA-MEM and BWA-SW share similar features such as long-read support and split alignment, but BWA-MEM, which is the latest, is generally recommended for high-quality queries as it is faster and more accurate. BWA-MEM also has better performance than BWA-backtrack for 70-100bp Illumina reads. . This package contains the source files for use in other programs. drwxr-xr-x root/root 0 2024-09-07 11:58 ./ drwxr-xr-x root/root 0 2024-09-07 11:58 ./usr/ drwxr-xr-x root/root 0 2024-09-07 11:58 ./usr/include/ drwxr-xr-x root/root 0 2024-09-07 11:58 ./usr/include/bwa/ -rw-r--r-- root/root 1646 2024-04-15 02:53 ./usr/include/bwa/QSufSort.h -rw-r--r-- root/root 3124 2024-04-15 02:53 ./usr/include/bwa/bamlite.h -rw-r--r-- root/root 2842 2024-04-15 02:53 ./usr/include/bwa/bntseq.h -rw-r--r-- root/root 3337 2024-04-15 02:53 ./usr/include/bwa/bwa.h -rw-r--r-- root/root 9284 2024-09-07 11:58 ./usr/include/bwa/bwamem.h -rw-r--r-- root/root 1033 2024-04-15 02:53 ./usr/include/bwa/bwase.h -rw-r--r-- root/root 5081 2024-04-15 02:53 ./usr/include/bwa/bwt.h -rw-r--r-- root/root 653 2024-04-15 02:53 ./usr/include/bwa/bwt_lite.h -rw-r--r-- root/root 3833 2024-04-15 02:53 ./usr/include/bwa/bwtaln.h -rw-r--r-- root/root 996 2024-04-15 02:53 ./usr/include/bwa/bwtgap.h -rw-r--r-- root/root 1524 2024-04-15 02:53 ./usr/include/bwa/bwtsw2.h -rw-r--r-- root/root 15889 2024-04-15 02:53 ./usr/include/bwa/kbtree.h -rw-r--r-- root/root 20888 2024-04-15 02:53 ./usr/include/bwa/khash.h -rw-r--r-- root/root 8857 2024-04-15 02:53 ./usr/include/bwa/kseq.h -rw-r--r-- root/root 9718 2024-04-15 02:53 ./usr/include/bwa/ksort.h -rw-r--r-- root/root 2332 2024-04-15 02:53 ./usr/include/bwa/kstring.h -rw-r--r-- root/root 5091 2024-04-15 02:53 ./usr/include/bwa/ksw.h -rw-r--r-- root/root 2940 2024-04-15 02:53 ./usr/include/bwa/kvec.h -rw-r--r-- root/root 1183 2024-04-15 02:53 ./usr/include/bwa/malloc_wrap.h -rw-r--r-- root/root 1482 2024-04-15 02:53 ./usr/include/bwa/neon_sse.h -rw-r--r-- root/root 1910 2024-04-15 02:53 ./usr/include/bwa/rle.h -rw-r--r-- root/root 1548 2024-04-15 02:53 ./usr/include/bwa/rope.h -rw-r--r-- root/root 2619 2024-04-15 02:53 ./usr/include/bwa/scalar_sse.h -rw-r--r-- root/root 3916 2024-04-15 02:53 ./usr/include/bwa/utils.h drwxr-xr-x root/root 0 2024-09-07 11:58 ./usr/lib/ -rw-r--r-- root/root 340952 2024-09-07 11:58 ./usr/lib/libbwa.a drwxr-xr-x root/root 0 2024-09-07 11:58 ./usr/share/ drwxr-xr-x root/root 0 2024-09-07 11:58 ./usr/share/doc/ drwxr-xr-x root/root 0 2024-09-07 11:58 ./usr/share/doc/libbwa-dev/ -rw-r--r-- root/root 948 2024-09-07 11:58 ./usr/share/doc/libbwa-dev/changelog.Debian.gz -rw-r--r-- root/root 14294 2024-09-07 11:58 ./usr/share/doc/libbwa-dev/changelog.gz -rw-r--r-- root/root 4397 2024-09-07 11:58 ./usr/share/doc/libbwa-dev/copyright +------------------------------------------------------------------------------+ | Post Build Sun, 17 Aug 2025 09:21:31 +0000 | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup Sun, 17 Aug 2025 09:21:31 +0000 | +------------------------------------------------------------------------------+ Purging /build/bwa-sno9bf Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary Sun, 17 Aug 2025 09:21:32 +0000 | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: full Build-Space: 9656 Build-Time: 19 Distribution: perl-5.42-throwaway Host Architecture: amd64 Install-Time: 7 Job: /srv/debomatic/incoming/bwa_0.7.18-1.dsc Machine Architecture: amd64 Package: bwa Package-Time: 43 Source-Version: 0.7.18-1 Space: 9656 Status: successful Version: 0.7.18-1 -------------------------------------------------------------------------------- Finished at 2025-08-17T09:21:30Z Build needed 00:00:43, 9656k disk space