sbuild (Debian sbuild) 0.91.10 (27 June 2026) on carme.larted.org.uk +==============================================================================+ | bwa 0.7.19-1 (amd64) Thu, 09 Jul 2026 04:37:48 +0000 | +==============================================================================+ Package: bwa Version: 0.7.19-1 Source Version: 0.7.19-1 Distribution: perl-5.44-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 Thu, 09 Jul 2026 04:37:49 +0000 | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup bwa_0.7.19-1 perl-5.44-throwaway amd64 ------------------------------------------------------------------------------------------------------------- I: Finished running '/usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup bwa_0.7.19-1 perl-5.44-throwaway amd64'. Finished processing commands. -------------------------------------------------------------------------------- I: Setting up apt archive... +------------------------------------------------------------------------------+ | Update chroot Thu, 09 Jul 2026 04:37:49 +0000 | +------------------------------------------------------------------------------+ Get:1 file:/srv/reprepro perl-5.44 InRelease [3039 B] Get:1 file:/srv/reprepro perl-5.44 InRelease [3039 B] Hit:2 http://deb.debian.org/debian unstable InRelease Hit:3 http://deb.debian.org/debian sid InRelease Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. +------------------------------------------------------------------------------+ | Fetch source files Thu, 09 Jul 2026 04:37:50 +0000 | +------------------------------------------------------------------------------+ Local sources ------------- /srv/debomatic/incoming/bwa_0.7.19-1.dsc exists in /srv/debomatic/incoming; copying to chroot +------------------------------------------------------------------------------+ | Install package build dependencies Thu, 09 Jul 2026 04:37:51 +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-v29D7R/resolver-2WFIAC/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/build/bwa-v29D7R/resolver-2WFIAC/apt_archive ./ InRelease Get:2 copy:/build/bwa-v29D7R/resolver-2WFIAC/apt_archive ./ Release [609 B] Ign:3 copy:/build/bwa-v29D7R/resolver-2WFIAC/apt_archive ./ Release.gpg Get:4 copy:/build/bwa-v29D7R/resolver-2WFIAC/apt_archive ./ Sources [612 B] Get:5 copy:/build/bwa-v29D7R/resolver-2WFIAC/apt_archive ./ Packages [651 B] Fetched 1872 B in 0s (0 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... Solving dependencies... 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 m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx python3:any 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 12.8 MB of archives. After this operation, 55.7 MB of additional disk space will be used. Get:1 copy:/build/bwa-v29D7R/resolver-2WFIAC/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [864 B] Get:2 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.26 [27.0 kB] Get:3 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.47-4 [345 kB] Get:4 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.47-4 [111 kB] Get:5 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.47-4 [43.0 kB] Get:6 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 1.0-3 [332 kB] Get:7 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-2+b2 [69.0 kB] Get:8 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.24.1-1 [1336 kB] Get:9 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.42.2-1 [100.0 kB] Get:10 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-3 [49.2 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 1.4.21-1 [332 kB] Get:13 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.73-2 [516 kB] Get:14 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20240727.1+nmu1 [60.0 kB] Get:15 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.18.1-4 [877 kB] Get:16 http://deb.debian.org/debian unstable/main amd64 autopoint all 1.0-3 [820 kB] Get:17 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 14.3 [77.3 kB] Get:18 http://deb.debian.org/debian unstable/main amd64 libtool all 2.5.4-11 [539 kB] Get:19 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 22 [12.2 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 1.15.1-1 [17.1 kB] Get:22 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.15.1-1 [6020 B] Get:23 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.195-1 [58.1 kB] Get:24 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.16-4 [108 kB] Get:25 http://deb.debian.org/debian unstable/main amd64 libxml2-16 amd64 2.15.3+dfsg-1 [642 kB] Get:26 http://deb.debian.org/debian unstable/main amd64 gettext amd64 1.0-3 [2658 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 1.0.22 [216 kB] Get:29 http://deb.debian.org/debian unstable/main amd64 debhelper all 14.3 [934 kB] Get:30 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.2-3 [918 kB] Preconfiguring packages ... Fetched 12.8 MB in 0s (148 MB/s) Selecting previously unselected package sensible-utils. (Reading database ... 14518 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.26_all.deb ... Unpacking sensible-utils (0.0.26) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.47-4_amd64.deb ... Unpacking libmagic-mgc (1:5.47-4) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../02-libmagic1t64_1%3a5.47-4_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.47-4) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.47-4_amd64.deb ... Unpacking file (1:5.47-4) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_1.0-3_amd64.deb ... Unpacking gettext-base (1.0-3) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../05-libuchardet0_0.0.8-2+b2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-2+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.24.1-1_amd64.deb ... Unpacking groff-base (1.24.1-1) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.42.2-1_amd64.deb ... Unpacking bsdextrautils (2.42.2-1) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../08-libpipeline1_1.5.8-3_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-3) ... 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_1.4.21-1_amd64.deb ... Unpacking m4 (1.4.21-1) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.73-2_all.deb ... Unpacking autoconf (2.73-2) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20240727.1+nmu1_all.deb ... Unpacking autotools-dev (20240727.1+nmu1) ... Selecting previously unselected package automake. Preparing to unpack .../13-automake_1%3a1.18.1-4_all.deb ... Unpacking automake (1:1.18.1-4) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_1.0-3_all.deb ... Unpacking autopoint (1.0-3) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_14.3_all.deb ... Unpacking libdebhelper-perl (14.3) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.5.4-11_all.deb ... Unpacking libtool (2.5.4-11) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../17-dh-autoreconf_22_all.deb ... Unpacking dh-autoreconf (22) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../18-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../19-libfile-stripnondeterminism-perl_1.15.1-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.15.1-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../20-dh-strip-nondeterminism_1.15.1-1_all.deb ... Unpacking dh-strip-nondeterminism (1.15.1-1) ... Selecting previously unselected package libelf1t64:amd64. Preparing to unpack .../21-libelf1t64_0.195-1_amd64.deb ... Unpacking libelf1t64:amd64 (0.195-1) ... Selecting previously unselected package dwz. Preparing to unpack .../22-dwz_0.16-4_amd64.deb ... Unpacking dwz (0.16-4) ... Selecting previously unselected package libxml2-16:amd64. Preparing to unpack .../23-libxml2-16_2.15.3+dfsg-1_amd64.deb ... Unpacking libxml2-16:amd64 (2.15.3+dfsg-1) ... Selecting previously unselected package gettext. Preparing to unpack .../24-gettext_1.0-3_amd64.deb ... Unpacking gettext (1.0-3) ... 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_1.0.22_all.deb ... Unpacking po-debconf (1.0.22) ... Selecting previously unselected package debhelper. Preparing to unpack .../27-debhelper_14.3_all.deb ... Unpacking debhelper (14.3) ... Selecting previously unselected package zlib1g-dev:amd64. Preparing to unpack .../28-zlib1g-dev_1%3a1.3.dfsg+really1.3.2-3_amd64.deb ... Unpacking zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.2-3) ... 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 (1.5.8-3) ... Setting up bsdextrautils (2.42.2-1) ... Setting up libmagic-mgc (1:5.47-4) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libxml2-16:amd64 (2.15.3+dfsg-1) ... Setting up libdebhelper-perl (14.3) ... Setting up libmagic1t64:amd64 (1:5.47-4) ... Setting up gettext-base (1.0-3) ... Setting up m4 (1.4.21-1) ... Setting up file (1:5.47-4) ... Setting up libelf1t64:amd64 (0.195-1) ... Setting up autotools-dev (20240727.1+nmu1) ... Setting up autopoint (1.0-3) ... Setting up autoconf (2.73-2) ... Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.2-3) ... Setting up dwz (0.16-4) ... Setting up sensible-utils (0.0.26) ... Setting up libuchardet0:amd64 (0.0.8-2+b2) ... Setting up automake (1:1.18.1-4) ... update-alternatives: using /usr/bin/automake-1.18 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.15.1-1) ... Setting up gettext (1.0-3) ... Setting up libtool (2.5.4-11) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (22) ... Setting up dh-strip-nondeterminism (1.15.1-1) ... Setting up groff-base (1.24.1-1) ... Setting up po-debconf (1.0.22) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (14.3) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.42-17) ... +------------------------------------------------------------------------------+ | Check architectures Thu, 09 Jul 2026 04:37:54 +0000 | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any) +------------------------------------------------------------------------------+ | Build environment Thu, 09 Jul 2026 04:37:54 +0000 | +------------------------------------------------------------------------------+ Kernel: Linux 7.0.10+deb14-amd64 #1 SMP PREEMPT_DYNAMIC Debian 7.0.10-1 (2026-05-27) amd64 (x86_64) Toolchain package versions: binutils_2.46.50.20260617-1 dpkg-dev_1.23.7 g++-15_15.3.0-1 gcc-15_15.3.0-1 libc6-dev_2.42-17 libstdc++-15-dev_15.3.0-1 libstdc++6_16.1.0-2 linux-libc-dev_7.1.3-1 Package versions: apt_3.3.1 autoconf_2.73-2 automake_1:1.18.1-4 autopoint_1.0-3 autotools-dev_20240727.1+nmu1 base-files_14.2 base-passwd_3.6.8 bash_5.3-3 binutils_2.46.50.20260617-1 binutils-common_2.46.50.20260617-1 binutils-x86-64-linux-gnu_2.46.50.20260617-1 bsdextrautils_2.42.2-1 build-essential_12.12 bzip2_1.0.8-6+b2 coreutils_9.10-1 cpp_4:15.2.0-5+b1 cpp-15_15.3.0-1 cpp-15-x86-64-linux-gnu_15.3.0-1 cpp-x86-64-linux-gnu_4:15.2.0-5+b1 dash_0.5.12-12 debconf_1.5.92 debhelper_14.3 debian-archive-keyring_2025.1 debianutils_5.23.2 dh-autoreconf_22 dh-strip-nondeterminism_1.15.1-1 diffutils_1:3.12-1 dirmngr_2.4.9-5 dpkg_1.23.7 dpkg-dev_1.23.7 dwz_0.16-4 eatmydata_131-2 file_1:5.47-4 findutils_4.10.0-4 g++_4:15.2.0-5+b1 g++-15_15.3.0-1 g++-15-x86-64-linux-gnu_15.3.0-1 g++-x86-64-linux-gnu_4:15.2.0-5+b1 gcc_4:15.2.0-5+b1 gcc-15_15.3.0-1 gcc-15-base_15.3.0-1 gcc-15-x86-64-linux-gnu_15.3.0-1 gcc-16-base_16.1.0-2 gcc-x86-64-linux-gnu_4:15.2.0-5+b1 gettext_1.0-3 gettext-base_1.0-3 gnupg_2.4.9-5 gnupg-l10n_2.4.9-5 gpg_2.4.9-5 gpg-agent_2.4.9-5 gpgconf_2.4.9-5 gpgsm_2.4.9-5 grep_3.12-1 groff-base_1.24.1-1 gzip_1.13-1 hostname_3.25 init-system-helpers_1.69 intltool-debian_0.35.0+20060710.6 libacl1_2.4.0-1 libapt-pkg7.0_3.3.1 libarchive-zip-perl_1.68-1 libasan8_16.1.0-2 libassuan9_3.0.2-2+b2 libatomic1_16.1.0-2 libattr1_1:2.6.0-1 libaudit-common_1:4.1.2-1 libaudit1_1:4.1.2-1+b1 libbinutils_2.46.50.20260617-1 libblkid1_2.42.2-1 libbz2-1.0_1.0.8-6+b2 libc-bin_2.42-17 libc-dev-bin_2.42-17 libc-gconv-modules-extra_2.42-17 libc6_2.42-17 libc6-dev_2.42-17 libcap-ng0_0.9.3-1+b1 libcc1-0_16.1.0-2 libcrypt1_1:4.5.1-1+b1 libctf-nobfd0_2.46.50.20260617-1 libctf0_2.46.50.20260617-1 libdb5.3t64_5.3.28+dfsg2-11+b1 libdebconfclient0_0.283 libdebhelper-perl_14.3 libdpkg-perl_1.23.7 libeatmydata1_131-2+b2 libelf1t64_0.195-1 libffi8_3.5.2-4 libfile-stripnondeterminism-perl_1.15.1-1 libgcc-15-dev_15.3.0-1 libgcc-s1_16.1.0-2 libgcrypt20_1.12.2-1 libgdbm-compat4t64_1.26-1+b2 libgdbm6t64_1.26-1+b2 libgmp10_2:6.3.0+dfsg-5+b2 libgnutls30t64_3.8.13-1 libgomp1_16.1.0-2 libgpg-error0_1.61-3 libgprofng0_2.46.50.20260617-1 libhogweed6t64_3.10.2-1+b1 libhwasan0_16.1.0-2 libidn2-0_2.3.8-5 libisl23_0.27-2 libitm1_16.1.0-2 libjansson4_2.15.1-1 libksba8_1.8.0-3 libldap2_2.6.13+dfsg-1+b1 liblsan0_16.1.0-2 liblz4-1_1.10.0-10 liblzma5_5.8.3-1 libmagic-mgc_1:5.47-4 libmagic1t64_1:5.47-4 libmd0_1.2.0-2 libmount1_2.42.2-1 libmpc3_1.3.1-3 libmpfr6_4.2.2-3 libncursesw6_6.6+20260608-2 libnettle8t64_3.10.2-1+b1 libnpth0t64_1.8-3+b2 libp11-kit0_0.26.2-3 libpam-modules_1.7.0-8 libpam-modules-bin_1.7.0-8 libpam-runtime_1.7.0-8 libpam0g_1.7.0-8 libpcre2-8-0_10.46-1+b2 libperl5.40_5.40.1-8 libperl5.44_5.44.0~rc2-1 libpipeline1_1.5.8-3 libquadmath0_16.1.0-2 libreadline8t64_8.3-4 libsasl2-2_2.1.28+dfsg1-11 libsasl2-modules-db_2.1.28+dfsg1-11 libseccomp2_2.6.0-2+b1 libselinux1_3.10-1 libsframe3_2.46.50.20260617-1 libsmartcols1_2.42.2-1 libsqlite3-0_3.53.3-1 libssl3t64_3.6.3-1 libstdc++-15-dev_15.3.0-1 libstdc++6_16.1.0-2 libsystemd0_261.1-2 libtasn1-6_4.21.0-2+b1 libtinfo6_6.6+20260608-2 libtool_2.5.4-11 libtsan2_16.1.0-2 libubsan1_16.1.0-2 libuchardet0_0.0.8-2+b2 libudev1_261.1-2 libunistring5_1.4.2-1 libuuid1_2.42.2-1 libxml2-16_2.15.3+dfsg-1 libxxhash0_0.8.3-2+b2 libzstd1_1.5.7+dfsg-3+b2 linux-libc-dev_7.1.3-1 m4_1.4.21-1 make_4.4.1-3 man-db_2.13.1-1 mawk_1.3.4.20260302-1 ncurses-base_6.6+20260608-2 ncurses-bin_6.6+20260608-2 openssl-provider-legacy_3.6.3-1 patch_2.8-2 perl_5.44.0~rc2-1 perl-base_5.44.0~rc2-1 perl-modules-5.40_5.40.1-8 perl-modules-5.44_5.44.0~rc2-1 pinentry-curses_1.3.2-4 po-debconf_1.0.22 readline-common_8.3-4 rpcsvc-proto_1.4.4-1 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.9-3 sensible-utils_0.0.26 sqv_1.4.0-1 sysvinit-utils_3.18-1 tar_1.35+dfsg-4 util-linux_2.42.2-1 xz-utils_5.8.3-1 zlib1g_1:1.3.dfsg+really1.3.2-3 zlib1g-dev_1:1.3.dfsg+really1.3.2-3 +------------------------------------------------------------------------------+ | Build Thu, 09 Jul 2026 04:37:54 +0000 | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: bwa Binary: bwa, libbwa-dev Architecture: any Version: 0.7.19-1 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: 4.7.2 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: 0d2ecccd8175c02532d431f52e2eec3b12b9eeda 238518 bwa_0.7.19.orig.tar.gz 9c67fe8a33a46fedbcb9cf31b0c7308022e59d5d 8792 bwa_0.7.19-1.debian.tar.xz Checksums-Sha256: cdff5db67652c5b805a3df08c4e813a822c65791913eccfb3cf7d528588f37bc 238518 bwa_0.7.19.orig.tar.gz 7fdcacc27edbcf9b4d2e0796ac6a735c64ef5e6dc8a103aa4d4b0b6d23957704 8792 bwa_0.7.19-1.debian.tar.xz Files: 7e23ad2cdea2f750b70eb17590af2272 238518 bwa_0.7.19.orig.tar.gz 49cd21bde0f99c2930f7290bc68d6593 8792 bwa_0.7.19-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEck1gkzcRPHEFUNdHPCZ2P2xn5uIFAmiiVDwACgkQPCZ2P2xn 5uLL4RAAhanzpmMNQsQ15lokPhmEXKj8P2/1ntek1I78tG8f5LbhhF7bBOOhdS/Q ZqkFgzlda+w7u0D5Z1DWqBJzWNlN8/pQeanBawr90ACM4VDUxooAQdKUYJjA6/Om ChUdNFsGrzFa2ttR0XSxykVPcgLwLVF9wrhcSA4VLfGFI92CMlpb1lXdVE2F1I7f cK5JgtACuEGVyl6oXV7xR8XkpRENBEARY3kWDmg7r1VM3p135fi+oGhsfbiN6/yC eDAXebQOdEHcxnhtQxqv+mYeOSDEpLRUzv6VR4q9h+LxqkwjsS+iujWZxXikrAL6 RhgB4bFFyfqtMXbzpFjtLyvdwL8sc6LO1332YimXF2KSKM3Cr/D5oZ35lmrf6EvL vmaHHF+cnTv8eId9d82dTYh+cJSuoatEvIiKevuQpKF/Z84babxlw36igZdrvtXW 61PGnR6LW65J/hEqdswR/uHL/Oasey/7ITM6htVKbojlzeDjw6jWNtLq2RtK2tsk EZUHKc5O8wPhGNI3x7sxiOGmc0Xxcq0OzgKL6NGoy0unGxo1Y85KQAthV6/BlIee XcGAWgxQp/6ZsubNj8aHBgPTEPtscd1RpX4F2q5ukLjOgAAZsetteVGA41BL87nX 2H0zq4dc2+oP5kK4kI2r5i3zGhVp26zR8ruqQ8hT8pGN5iV0Q3c= =D6Qi -----END PGP SIGNATURE----- dpkg-source: warning: cannot verify inline signature for ./bwa_0.7.19-1.dsc: missing OpenPGP keyrings dpkg-source: info: verifying ./bwa_0.7.19-1.dsc dpkg-source: info: skipping absent keyring /usr/share/keyrings/debian-keyring.pgp dpkg-source: info: skipping absent keyring /usr/share/keyrings/debian-tag2upload.pgp dpkg-source: info: skipping absent keyring /usr/share/keyrings/debian-nonupload.pgp dpkg-source: info: skipping absent keyring /usr/share/keyrings/debian-maintainers.pgp dpkg-source: info: extracting bwa in /build/bwa-v29D7R/bwa-0.7.19 dpkg-source: info: unpacking bwa_0.7.19.orig.tar.gz dpkg-source: info: unpacking bwa_0.7.19-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying fix_heap_block_overrun clean up apt cache ------------------ Check disk space ---------------- Sufficient free space for build +------------------------------------------------------------------------------+ | Starting Time Build Commands Thu, 09 Jul 2026 04:37:55 +0000 | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/starting-build-commands/no-network bwa_0.7.19-1 perl-5.44-throwaway amd64 ------------------------------------------------------------------------------------------------------------- I: Finished running '/usr/share/debomatic/sbuildcommands/starting-build-commands/no-network bwa_0.7.19-1 perl-5.44-throwaway amd64'. Finished processing commands. -------------------------------------------------------------------------------- User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf HOME=/sbuild-nonexistent LANGUAGE=en_GB:en 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-v29D7R/bwa-0.7.19 SCHROOT_ALIAS_NAME=perl-5.44-throwaway-amd64-debomatic SCHROOT_CHROOT_NAME=perl-5.44-amd64-debomatic SCHROOT_COMMAND=env SCHROOT_GID=110 SCHROOT_GROUP=sbuild SCHROOT_SESSION_ID=perl-5.44-amd64-debomatic-363b71e9-fa58-4f26-9b3f-2d376a9a678e 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 0.7.19-1 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-v29D7R/bwa-0.7.19' rm -f gmon.out *.o a.out bwa *~ *.a make[1]: Leaving directory '/build/bwa-v29D7R/bwa-0.7.19' dh_clean dpkg-source -Zxz -b . dpkg-source: info: using source format '3.0 (quilt)' dpkg-source: info: building bwa using existing ../bwa_0.7.19.orig.tar.gz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: building bwa in ../bwa_0.7.19-1.debian.tar.xz dpkg-source: info: building bwa in ../bwa_0.7.19-1.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-v29D7R/bwa-0.7.19' dh_auto_build -- CFLAGS="-Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19' gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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 gcc -c -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/bwa-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19=. -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-v29D7R/bwa-0.7.19' make[1]: Leaving directory '/build/bwa-v29D7R/bwa-0.7.19' 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-v29D7R/bwa-0.7.19' 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-v29D7R/bwa-0.7.19' dh_installdocs debian/rules override_dh_installchangelogs make[1]: Entering directory '/build/bwa-v29D7R/bwa-0.7.19' dh_installchangelogs NEWS.md make[1]: Leaving directory '/build/bwa-v29D7R/bwa-0.7.19' 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-v29D7R/bwa-0.7.19' 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-v29D7R/bwa-0.7.19' dh_md5sums dh_builddeb dpkg-deb: building package 'bwa' in '../bwa_0.7.19-1_amd64.deb'. dpkg-deb: building package 'libbwa-dev' in '../libbwa-dev_0.7.19-1_amd64.deb'. dpkg-deb: building package 'bwa-dbgsym' in '../bwa-dbgsym_0.7.19-1_amd64.deb'. dpkg-genbuildinfo -O../bwa_0.7.19-1_amd64.buildinfo dpkg-genchanges -O../bwa_0.7.19-1_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 2026-07-09T04:38:05Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes Thu, 09 Jul 2026 04:38:05 +0000 | +------------------------------------------------------------------------------+ bwa_0.7.19-1_amd64.changes: --------------------------- Format: 1.8 Date: Sun, 17 Aug 2025 19:35:13 +0100 Source: bwa Binary: bwa bwa-dbgsym libbwa-dev Architecture: source amd64 Version: 0.7.19-1 Distribution: perl-5.44-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 (0.7.19-1) unstable; urgency=medium . * New upstream version * Standards-Version: 4.7.2 (routine-update) * Refreshed patches, removing three applied upstream (hurd, spelling, fix_build_on_freebsd). Checksums-Sha1: 82e12aa5253ce505a29f74dff224ec04f3272e17 1217 bwa_0.7.19-1.dsc 0d2ecccd8175c02532d431f52e2eec3b12b9eeda 238518 bwa_0.7.19.orig.tar.gz 9c67fe8a33a46fedbcb9cf31b0c7308022e59d5d 8792 bwa_0.7.19-1.debian.tar.xz c81dde7cfa2fc5c69e3d1cffe7738f7201849a32 455136 bwa-dbgsym_0.7.19-1_amd64.deb 7c9fcb9674f0888b86d26651f754f73a0467c23a 5424 bwa_0.7.19-1_amd64.buildinfo f85ed3d8f9e6503a6166cfd25b29df7d0c50eefa 211728 bwa_0.7.19-1_amd64.deb f41bfbb7069d1126d547914d7eab21d7d6faecb3 155976 libbwa-dev_0.7.19-1_amd64.deb Checksums-Sha256: 7a6f2b7a6fcf7b6363d82f1ca57f524306d7caf97dd3cf8605a7bc21d5bfabb9 1217 bwa_0.7.19-1.dsc cdff5db67652c5b805a3df08c4e813a822c65791913eccfb3cf7d528588f37bc 238518 bwa_0.7.19.orig.tar.gz 7fdcacc27edbcf9b4d2e0796ac6a735c64ef5e6dc8a103aa4d4b0b6d23957704 8792 bwa_0.7.19-1.debian.tar.xz c8f228423ff4942a17b9479e3c4ebd105e0cd95c29818039f52f12308f97ea35 455136 bwa-dbgsym_0.7.19-1_amd64.deb 6a7c464b1b968f006bd5b96bb5b8f46f3c51144c5ba19755a42d8fd025a97206 5424 bwa_0.7.19-1_amd64.buildinfo fdf3a1477ee69d707848b7600aed4025fa494cf8e335af1b7e3c57e70730a66a 211728 bwa_0.7.19-1_amd64.deb 2452137a773ecb0b2bb774d2af89f085dbb4924224af99910729082689e51848 155976 libbwa-dev_0.7.19-1_amd64.deb Files: e503bcbeb757c7fb33903edb85554108 1217 science optional bwa_0.7.19-1.dsc 7e23ad2cdea2f750b70eb17590af2272 238518 science optional bwa_0.7.19.orig.tar.gz 49cd21bde0f99c2930f7290bc68d6593 8792 science optional bwa_0.7.19-1.debian.tar.xz c701e961b393c544a461c9331f00ceb0 455136 debug optional bwa-dbgsym_0.7.19-1_amd64.deb 42f8044c2a342ef6b5f85ff584d5e190 5424 science optional bwa_0.7.19-1_amd64.buildinfo 6fcc99ec7f0108e12d6ea63e2a2188cb 211728 science optional bwa_0.7.19-1_amd64.deb 8ca0fc14e1064d5bf0730c40f7684bbf 155976 libdevel optional libbwa-dev_0.7.19-1_amd64.deb +------------------------------------------------------------------------------+ | Buildinfo Thu, 09 Jul 2026 04:38:05 +0000 | +------------------------------------------------------------------------------+ Format: 1.0 Source: bwa Binary: bwa bwa-dbgsym libbwa-dev Architecture: amd64 source Version: 0.7.19-1 Checksums-Md5: e503bcbeb757c7fb33903edb85554108 1217 bwa_0.7.19-1.dsc c701e961b393c544a461c9331f00ceb0 455136 bwa-dbgsym_0.7.19-1_amd64.deb 6fcc99ec7f0108e12d6ea63e2a2188cb 211728 bwa_0.7.19-1_amd64.deb 8ca0fc14e1064d5bf0730c40f7684bbf 155976 libbwa-dev_0.7.19-1_amd64.deb Checksums-Sha1: 82e12aa5253ce505a29f74dff224ec04f3272e17 1217 bwa_0.7.19-1.dsc c81dde7cfa2fc5c69e3d1cffe7738f7201849a32 455136 bwa-dbgsym_0.7.19-1_amd64.deb f85ed3d8f9e6503a6166cfd25b29df7d0c50eefa 211728 bwa_0.7.19-1_amd64.deb f41bfbb7069d1126d547914d7eab21d7d6faecb3 155976 libbwa-dev_0.7.19-1_amd64.deb Checksums-Sha256: 7a6f2b7a6fcf7b6363d82f1ca57f524306d7caf97dd3cf8605a7bc21d5bfabb9 1217 bwa_0.7.19-1.dsc c8f228423ff4942a17b9479e3c4ebd105e0cd95c29818039f52f12308f97ea35 455136 bwa-dbgsym_0.7.19-1_amd64.deb fdf3a1477ee69d707848b7600aed4025fa494cf8e335af1b7e3c57e70730a66a 211728 bwa_0.7.19-1_amd64.deb 2452137a773ecb0b2bb774d2af89f085dbb4924224af99910729082689e51848 155976 libbwa-dev_0.7.19-1_amd64.deb Build-Origin: Debian Build-Architecture: amd64 Build-Date: Thu, 09 Jul 2026 04:38:05 +0000 Build-Path: /build/bwa-v29D7R/bwa-0.7.19 Build-Tainted-By: usr-local-has-programs Installed-Build-Depends: autoconf (= 2.73-2), automake (= 1:1.18.1-4), autopoint (= 1.0-3), autotools-dev (= 20240727.1+nmu1), base-files (= 14.2), base-passwd (= 3.6.8), bash (= 5.3-3), binutils (= 2.46.50.20260617-1), binutils-common (= 2.46.50.20260617-1), binutils-x86-64-linux-gnu (= 2.46.50.20260617-1), bsdextrautils (= 2.42.2-1), build-essential (= 12.12), bzip2 (= 1.0.8-6+b2), coreutils (= 9.10-1), cpp (= 4:15.2.0-5+b1), cpp-15 (= 15.3.0-1), cpp-15-x86-64-linux-gnu (= 15.3.0-1), cpp-x86-64-linux-gnu (= 4:15.2.0-5+b1), dash (= 0.5.12-12), debconf (= 1.5.92), debhelper (= 14.3), debianutils (= 5.23.2), dh-autoreconf (= 22), dh-strip-nondeterminism (= 1.15.1-1), diffutils (= 1:3.12-1), dpkg (= 1.23.7), dpkg-dev (= 1.23.7), dwz (= 0.16-4), file (= 1:5.47-4), findutils (= 4.10.0-4), g++ (= 4:15.2.0-5+b1), g++-15 (= 15.3.0-1), g++-15-x86-64-linux-gnu (= 15.3.0-1), g++-x86-64-linux-gnu (= 4:15.2.0-5+b1), gcc (= 4:15.2.0-5+b1), gcc-15 (= 15.3.0-1), gcc-15-base (= 15.3.0-1), gcc-15-x86-64-linux-gnu (= 15.3.0-1), gcc-16-base (= 16.1.0-2), gcc-x86-64-linux-gnu (= 4:15.2.0-5+b1), gettext (= 1.0-3), gettext-base (= 1.0-3), grep (= 3.12-1), groff-base (= 1.24.1-1), gzip (= 1.13-1), hostname (= 3.25), init-system-helpers (= 1.69), intltool-debian (= 0.35.0+20060710.6), libacl1 (= 2.4.0-1), libarchive-zip-perl (= 1.68-1), libasan8 (= 16.1.0-2), libatomic1 (= 16.1.0-2), libattr1 (= 1:2.6.0-1), libaudit-common (= 1:4.1.2-1), libaudit1 (= 1:4.1.2-1+b1), libbinutils (= 2.46.50.20260617-1), libblkid1 (= 2.42.2-1), libbz2-1.0 (= 1.0.8-6+b2), libc-bin (= 2.42-17), libc-dev-bin (= 2.42-17), libc-gconv-modules-extra (= 2.42-17), libc6 (= 2.42-17), libc6-dev (= 2.42-17), libcap-ng0 (= 0.9.3-1+b1), libcc1-0 (= 16.1.0-2), libcrypt1 (= 1:4.5.1-1+b1), libctf-nobfd0 (= 2.46.50.20260617-1), libctf0 (= 2.46.50.20260617-1), libdb5.3t64 (= 5.3.28+dfsg2-11+b1), libdebconfclient0 (= 0.283), libdebhelper-perl (= 14.3), libdpkg-perl (= 1.23.7), libelf1t64 (= 0.195-1), libfile-stripnondeterminism-perl (= 1.15.1-1), libgcc-15-dev (= 15.3.0-1), libgcc-s1 (= 16.1.0-2), libgdbm-compat4t64 (= 1.26-1+b2), libgdbm6t64 (= 1.26-1+b2), libgmp10 (= 2:6.3.0+dfsg-5+b2), libgomp1 (= 16.1.0-2), libgprofng0 (= 2.46.50.20260617-1), libhwasan0 (= 16.1.0-2), libisl23 (= 0.27-2), libitm1 (= 16.1.0-2), libjansson4 (= 2.15.1-1), liblsan0 (= 16.1.0-2), liblzma5 (= 5.8.3-1), libmagic-mgc (= 1:5.47-4), libmagic1t64 (= 1:5.47-4), libmd0 (= 1.2.0-2), libmount1 (= 2.42.2-1), libmpc3 (= 1.3.1-3), libmpfr6 (= 4.2.2-3), libpam-modules (= 1.7.0-8), libpam-modules-bin (= 1.7.0-8), libpam-runtime (= 1.7.0-8), libpam0g (= 1.7.0-8), libpcre2-8-0 (= 10.46-1+b2), libperl5.44 (= 5.44.0~rc2-1), libpipeline1 (= 1.5.8-3), libquadmath0 (= 16.1.0-2), libseccomp2 (= 2.6.0-2+b1), libselinux1 (= 3.10-1), libsframe3 (= 2.46.50.20260617-1), libsmartcols1 (= 2.42.2-1), libssl3t64 (= 3.6.3-1), libstdc++-15-dev (= 15.3.0-1), libstdc++6 (= 16.1.0-2), libsystemd0 (= 261.1-2), libtinfo6 (= 6.6+20260608-2), libtool (= 2.5.4-11), libtsan2 (= 16.1.0-2), libubsan1 (= 16.1.0-2), libuchardet0 (= 0.0.8-2+b2), libudev1 (= 261.1-2), libunistring5 (= 1.4.2-1), libuuid1 (= 2.42.2-1), libxml2-16 (= 2.15.3+dfsg-1), libzstd1 (= 1.5.7+dfsg-3+b2), linux-libc-dev (= 7.1.3-1), m4 (= 1.4.21-1), make (= 4.4.1-3), man-db (= 2.13.1-1), mawk (= 1.3.4.20260302-1), ncurses-base (= 6.6+20260608-2), ncurses-bin (= 6.6+20260608-2), openssl-provider-legacy (= 3.6.3-1), patch (= 2.8-2), perl (= 5.44.0~rc2-1), perl-base (= 5.44.0~rc2-1), perl-modules-5.44 (= 5.44.0~rc2-1), po-debconf (= 1.0.22), rpcsvc-proto (= 1.4.4-1), sed (= 4.9-3), sensible-utils (= 0.0.26), sysvinit-utils (= 3.18-1), tar (= 1.35+dfsg-4), util-linux (= 2.42.2-1), xz-utils (= 5.8.3-1), zlib1g (= 1:1.3.dfsg+really1.3.2-3), zlib1g-dev (= 1:1.3.dfsg+really1.3.2-3) Environment: DEB_BUILD_OPTIONS="parallel=2" LANG="C.UTF-8" LANGUAGE="en_GB:en" LC_COLLATE="C.UTF-8" LC_CTYPE="C.UTF-8" LD_LIBRARY_PATH="/usr/lib/libeatmydata" LD_PRELOAD="libeatmydata.so" SOURCE_DATE_EPOCH="1755455713" +------------------------------------------------------------------------------+ | Package contents Thu, 09 Jul 2026 04:38:05 +0000 | +------------------------------------------------------------------------------+ bwa-dbgsym_0.7.19-1_amd64.deb ----------------------------- new Debian package, version 2.0. size 455136 bytes: control archive=528 bytes. 356 bytes, 12 lines control 106 bytes, 1 lines md5sums Package: bwa-dbgsym Source: bwa Version: 0.7.19-1 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 528 Depends: bwa (= 0.7.19-1) Section: debug Priority: optional Description: debug symbols for bwa Build-Ids: 0fe6c71d5ca453734f0cc8269ae4a95d47215fcd drwxr-xr-x root/root 0 2025-08-17 18:35 ./ drwxr-xr-x root/root 0 2025-08-17 18:35 ./usr/ drwxr-xr-x root/root 0 2025-08-17 18:35 ./usr/lib/ drwxr-xr-x root/root 0 2025-08-17 18:35 ./usr/lib/debug/ drwxr-xr-x root/root 0 2025-08-17 18:35 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2025-08-17 18:35 ./usr/lib/debug/.build-id/0f/ -rw-r--r-- root/root 530336 2025-08-17 18:35 ./usr/lib/debug/.build-id/0f/e6c71d5ca453734f0cc8269ae4a95d47215fcd.debug drwxr-xr-x root/root 0 2025-08-17 18:35 ./usr/share/ drwxr-xr-x root/root 0 2025-08-17 18:35 ./usr/share/doc/ lrwxrwxrwx root/root 0 2025-08-17 18:35 ./usr/share/doc/bwa-dbgsym -> bwa bwa_0.7.19-1_amd64.deb ---------------------- new Debian package, version 2.0. size 211728 bytes: control archive=1284 bytes. 985 bytes, 22 lines control 916 bytes, 14 lines md5sums Package: bwa Version: 0.7.19-1 Architecture: amd64 Maintainer: Debian Med Packaging Team Installed-Size: 457 Depends: libc6 (>= 2.38), 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 2025-08-17 18:35 ./ drwxr-xr-x root/root 0 2025-08-17 18:35 ./usr/ drwxr-xr-x root/root 0 2025-08-17 18:35 ./usr/bin/ -rwxr-xr-x root/root 404144 2025-08-17 18:35 ./usr/bin/bwa drwxr-xr-x root/root 0 2025-08-17 18:35 ./usr/share/ drwxr-xr-x root/root 0 2025-08-17 18:35 ./usr/share/bash-completion/ drwxr-xr-x root/root 0 2025-08-17 18:35 ./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 2025-08-17 18:35 ./usr/share/bwa/ -rwxr-xr-x root/root 613 2025-08-17 18:35 ./usr/share/bwa/qualfa2fq.pl -rwxr-xr-x root/root 783 2025-08-17 18:35 ./usr/share/bwa/xa2multi.pl drwxr-xr-x root/root 0 2025-08-17 18:35 ./usr/share/doc/ drwxr-xr-x root/root 0 2025-08-17 18:35 ./usr/share/doc/bwa/ -rw-r--r-- root/root 4216 2025-03-22 18:55 ./usr/share/doc/bwa/README-alt.md.gz -rw-r--r-- root/root 4140 2025-03-22 18:55 ./usr/share/doc/bwa/README.md.gz -rw-r--r-- root/root 781 2025-08-17 18:35 ./usr/share/doc/bwa/changelog.Debian.gz -rw-r--r-- root/root 14404 2025-03-22 18:55 ./usr/share/doc/bwa/changelog.gz -rw-r--r-- root/root 4397 2025-08-17 18:35 ./usr/share/doc/bwa/copyright drwxr-xr-x root/root 0 2025-08-17 18:35 ./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 2025-08-17 18:35 ./usr/share/man/ drwxr-xr-x root/root 0 2025-08-17 18:35 ./usr/share/man/man1/ -rw-r--r-- root/root 10583 2025-08-17 18:35 ./usr/share/man/man1/bwa.1.gz libbwa-dev_0.7.19-1_amd64.deb ----------------------------- new Debian package, version 2.0. size 155976 bytes: control archive=1628 bytes. 1025 bytes, 23 lines control 1682 bytes, 28 lines md5sums Package: libbwa-dev Source: bwa Version: 0.7.19-1 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 2025-08-17 18:35 ./ drwxr-xr-x root/root 0 2025-08-17 18:35 ./usr/ drwxr-xr-x root/root 0 2025-08-17 18:35 ./usr/include/ drwxr-xr-x root/root 0 2025-08-17 18:35 ./usr/include/bwa/ -rw-r--r-- root/root 1646 2025-03-22 18:55 ./usr/include/bwa/QSufSort.h -rw-r--r-- root/root 3124 2025-03-22 18:55 ./usr/include/bwa/bamlite.h -rw-r--r-- root/root 2842 2025-03-22 18:55 ./usr/include/bwa/bntseq.h -rw-r--r-- root/root 3337 2025-03-22 18:55 ./usr/include/bwa/bwa.h -rw-r--r-- root/root 9284 2025-03-22 18:55 ./usr/include/bwa/bwamem.h -rw-r--r-- root/root 1033 2025-03-22 18:55 ./usr/include/bwa/bwase.h -rw-r--r-- root/root 5081 2025-03-22 18:55 ./usr/include/bwa/bwt.h -rw-r--r-- root/root 653 2025-03-22 18:55 ./usr/include/bwa/bwt_lite.h -rw-r--r-- root/root 3833 2025-03-22 18:55 ./usr/include/bwa/bwtaln.h -rw-r--r-- root/root 996 2025-03-22 18:55 ./usr/include/bwa/bwtgap.h -rw-r--r-- root/root 1524 2025-03-22 18:55 ./usr/include/bwa/bwtsw2.h -rw-r--r-- root/root 15889 2025-03-22 18:55 ./usr/include/bwa/kbtree.h -rw-r--r-- root/root 20888 2025-03-22 18:55 ./usr/include/bwa/khash.h -rw-r--r-- root/root 8857 2025-03-22 18:55 ./usr/include/bwa/kseq.h -rw-r--r-- root/root 9718 2025-03-22 18:55 ./usr/include/bwa/ksort.h -rw-r--r-- root/root 2640 2025-03-22 18:55 ./usr/include/bwa/kstring.h -rw-r--r-- root/root 5091 2025-03-22 18:55 ./usr/include/bwa/ksw.h -rw-r--r-- root/root 2940 2025-03-22 18:55 ./usr/include/bwa/kvec.h -rw-r--r-- root/root 1183 2025-03-22 18:55 ./usr/include/bwa/malloc_wrap.h -rw-r--r-- root/root 1482 2025-03-22 18:55 ./usr/include/bwa/neon_sse.h -rw-r--r-- root/root 1910 2025-03-22 18:55 ./usr/include/bwa/rle.h -rw-r--r-- root/root 1548 2025-03-22 18:55 ./usr/include/bwa/rope.h -rw-r--r-- root/root 2619 2025-03-22 18:55 ./usr/include/bwa/scalar_sse.h -rw-r--r-- root/root 3916 2025-03-22 18:55 ./usr/include/bwa/utils.h drwxr-xr-x root/root 0 2025-08-17 18:35 ./usr/lib/ -rw-r--r-- root/root 339958 2025-08-17 18:35 ./usr/lib/libbwa.a drwxr-xr-x root/root 0 2025-08-17 18:35 ./usr/share/ drwxr-xr-x root/root 0 2025-08-17 18:35 ./usr/share/doc/ drwxr-xr-x root/root 0 2025-08-17 18:35 ./usr/share/doc/libbwa-dev/ -rw-r--r-- root/root 780 2025-08-17 18:35 ./usr/share/doc/libbwa-dev/changelog.Debian.gz -rw-r--r-- root/root 14404 2025-03-22 18:55 ./usr/share/doc/libbwa-dev/changelog.gz -rw-r--r-- root/root 4397 2025-08-17 18:35 ./usr/share/doc/libbwa-dev/copyright +------------------------------------------------------------------------------+ | Post Build Thu, 09 Jul 2026 04:38:06 +0000 | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup Thu, 09 Jul 2026 04:38:06 +0000 | +------------------------------------------------------------------------------+ Purging /build/bwa-v29D7R Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary Thu, 09 Jul 2026 04:38:06 +0000 | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: full Build-Space: 9556 Build-Time: 10 Distribution: perl-5.44-throwaway Host Architecture: amd64 Install-Time: 3 Job: /srv/debomatic/incoming/bwa_0.7.19-1.dsc Machine Architecture: amd64 Package: bwa Package-Time: 17 Source-Version: 0.7.19-1 Space: 9556 Status: successful Version: 0.7.19-1 -------------------------------------------------------------------------------- Finished at 2026-07-09T04:38:05Z Build needed 00:00:17, 9556k disk space