sbuild (Debian sbuild) 0.85.9 (29 May 2024) on carme.larted.org.uk +==============================================================================+ | libbio-samtools-perl 1.43-5+b1 (amd64) Sat, 01 Jun 2024 21:49:18 +0000 | +==============================================================================+ Package: libbio-samtools-perl Version: 1.43-5+b1 Source Version: 1.43-5 Distribution: perl-5.40 Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: any I: NOTICE: Log filtering will replace 'var/run/schroot/mount/perl-5.40-amd64-debomatic-e0e533b3-491b-4b7c-a92e-4fe6b049149a' with '<>' +------------------------------------------------------------------------------+ | Chroot Setup Commands | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup libbio-samtools-perl_1.43-5 perl-5.40 amd64 ------------------------------------------------------------------------------------------------------------------ I: Finished running '/usr/share/debomatic/sbuildcommands/chroot-setup-commands/dpkg-speedup libbio-samtools-perl_1.43-5 perl-5.40 amd64'. Finished processing commands. -------------------------------------------------------------------------------- I: NOTICE: Log filtering will replace 'build/libbio-samtools-perl-BJzB0l/resolver-xZqZgZ' with '<>' +------------------------------------------------------------------------------+ | Update chroot | +------------------------------------------------------------------------------+ Get:1 file:/srv/reprepro perl-5.40 InRelease [3036 B] Get:1 file:/srv/reprepro perl-5.40 InRelease [3036 B] Get:2 http://localhost:3142/debian unstable InRelease [198 kB] Get:3 http://localhost:3142/debian sid InRelease [198 kB] Get:4 file:/srv/reprepro perl-5.40/main amd64 Packages [249 kB] Get:5 http://localhost:3142/debian unstable/main amd64 Packages.diff/Index [63.6 kB] Get:6 http://localhost:3142/debian unstable/main amd64 Packages T-2024-06-01-2006.42-F-2024-06-01-2006.42.pdiff [24.4 kB] Get:7 http://localhost:3142/debian sid/main Sources.diff/Index [63.6 kB] Get:6 http://localhost:3142/debian unstable/main amd64 Packages T-2024-06-01-2006.42-F-2024-06-01-2006.42.pdiff [24.4 kB] Get:8 http://localhost:3142/debian sid/main Sources T-2024-06-01-2006.42-F-2024-06-01-2006.42.pdiff [13.8 kB] Get:8 http://localhost:3142/debian sid/main Sources T-2024-06-01-2006.42-F-2024-06-01-2006.42.pdiff [13.8 kB] Fetched 562 kB in 2s (295 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: libldap-2.5-0 linux-libc-dev 2 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 2329 kB/2516 kB of archives. After this operation, 10.2 kB of additional disk space will be used. Get:1 http://localhost:3142/debian unstable/main amd64 linux-libc-dev all 6.8.12-1 [2329 kB] Get:2 file:/srv/reprepro perl-5.40/main amd64 libldap-2.5-0 amd64 2.5.17+dfsg-1+b1 [186 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 2329 kB in 0s (79.2 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 ... 21778 files and directories currently installed.) Preparing to unpack .../libldap-2.5-0_2.5.17+dfsg-1+b1_amd64.deb ... Unpacking libldap-2.5-0:amd64 (2.5.17+dfsg-1+b1) over (2.5.17+dfsg-1) ... Preparing to unpack .../linux-libc-dev_6.8.12-1_all.deb ... Unpacking linux-libc-dev (6.8.12-1) over (6.8.11-1) ... Setting up linux-libc-dev (6.8.12-1) ... Setting up libldap-2.5-0:amd64 (2.5.17+dfsg-1+b1) ... Processing triggers for libc-bin (2.38-11) ... +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- /srv/debomatic/incoming/libbio-samtools-perl_1.43-5.dsc exists in /srv/debomatic/incoming; copying to chroot I: NOTICE: Log filtering will replace 'build/libbio-samtools-perl-BJzB0l/libbio-samtools-perl-1.43' with '<>' I: NOTICE: Log filtering will replace 'build/libbio-samtools-perl-BJzB0l' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), libbam-dev, libbio-perl-perl, libmodule-build-perl, perl-xs-dev, perl, zlib1g-dev, build-essential, fakeroot Filtered Build-Depends: debhelper-compat (= 13), libbam-dev, libbio-perl-perl, libmodule-build-perl, perl-xs-dev, perl, zlib1g-dev, build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<>/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [609 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [718 B] Get:5 copy:/<>/apt_archive ./ Packages [732 B] Fetched 2059 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... The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils debhelper dh-autoreconf dh-strip-nondeterminism dwz fakeroot file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libbam-dev libbio-perl-perl libdata-stag-perl libdebhelper-perl libelf1t64 libfakeroot libfile-stripnondeterminism-perl libicu72 libio-string-perl libmagic-mgc libmagic1t64 libmodule-build-perl libperl-dev libpipeline1 libtool libuchardet0 libxml2 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 groff bioperl libxml-sax-expatxs-perl libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx bioperl-run | libbio-perl-run-perl libace-perl libalgorithm-munkres-perl libarray-compare-perl libbio-asn1-entrezgene-perl libclone-perl libconvert-binary-c-perl libdbd-sqlite3-perl libdbd-mysql-perl libdbd-pg-perl libgd-perl libgraph-perl libgraphviz-perl libhtml-parser-perl libhtml-tableextract-perl liblist-moreutils-perl libpostscript-perl libset-scalar-perl libsoap-lite-perl libsort-naturally-perl libspreadsheet-parseexcel-perl libspreadsheet-writeexcel-perl libsvg-perl libsvg-graph-perl liburi-perl libxml-dom-xpath-perl libxml-parser-perl libxml-sax-perl libxml-sax-writer-perl libxml-simple-perl libxml-twig-perl libxml-writer-perl libxml-libxml-perl libwww-perl perl-tk libgd-gd2-perl | libgd-gd2-noxpm-perl libxml-libxslt-perl libmldbm-perl libxml-perl libarchive-cpio-perl libmodule-signature-perl libpod-readme-perl libsoftware-license-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 fakeroot file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libbam-dev libbio-perl-perl libdata-stag-perl libdebhelper-perl libelf1t64 libfakeroot libfile-stripnondeterminism-perl libicu72 libio-string-perl libmagic-mgc libmagic1t64 libmodule-build-perl libperl-dev libpipeline1 libtool libuchardet0 libxml2 m4 man-db po-debconf sbuild-build-depends-main-dummy sensible-utils zlib1g-dev 0 upgraded, 39 newly installed, 0 to remove and 0 not upgraded. Need to get 23.5 MB/24.6 MB of archives. After this operation, 91.2 MB of additional disk space will be used. Get:1 copy:/<>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [916 B] Get:2 http://localhost:3142/debian unstable/main amd64 sensible-utils all 0.0.22 [22.4 kB] Get:3 http://localhost:3142/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3 [314 kB] Get:4 file:/srv/reprepro perl-5.40/main amd64 libperl-dev amd64 5.40.0~rc1-1 [1096 kB] Get:5 http://localhost:3142/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3 [105 kB] Get:6 http://localhost:3142/debian unstable/main amd64 file amd64 1:5.45-3 [42.9 kB] Get:7 http://localhost:3142/debian unstable/main amd64 gettext-base amd64 0.21-14+b1 [161 kB] Get:8 http://localhost:3142/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b1 [68.8 kB] Get:9 http://localhost:3142/debian unstable/main amd64 groff-base amd64 1.23.0-4 [1180 kB] Get:10 http://localhost:3142/debian unstable/main amd64 bsdextrautils amd64 2.40.1-4 [95.7 kB] Get:11 http://localhost:3142/debian unstable/main amd64 libpipeline1 amd64 1.5.7-2 [38.0 kB] Get:12 http://localhost:3142/debian unstable/main amd64 man-db amd64 2.12.1-1 [1411 kB] Get:13 http://localhost:3142/debian unstable/main amd64 m4 amd64 1.4.19-4 [287 kB] Get:14 http://localhost:3142/debian unstable/main amd64 autoconf all 2.71-3 [332 kB] Get:15 http://localhost:3142/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get:16 http://localhost:3142/debian unstable/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get:17 http://localhost:3142/debian unstable/main amd64 autopoint all 0.21-14 [496 kB] Get:18 http://localhost:3142/debian unstable/main amd64 libdebhelper-perl all 13.15.3 [88.0 kB] Get:19 http://localhost:3142/debian unstable/main amd64 libtool all 2.4.7-7 [517 kB] Get:20 http://localhost:3142/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get:21 http://localhost:3142/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get:22 http://localhost:3142/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get:23 http://localhost:3142/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get:24 http://localhost:3142/debian unstable/main amd64 libelf1t64 amd64 0.191-1+b1 [189 kB] Get:25 http://localhost:3142/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get:26 http://localhost:3142/debian unstable/main amd64 libicu72 amd64 72.1-4+b1 [9395 kB] Get:27 http://localhost:3142/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg-2 [670 kB] Get:28 http://localhost:3142/debian unstable/main amd64 gettext amd64 0.21-14+b1 [1301 kB] Get:29 http://localhost:3142/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get:30 http://localhost:3142/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get:31 http://localhost:3142/debian unstable/main amd64 debhelper all 13.15.3 [901 kB] Get:32 http://localhost:3142/debian unstable/main amd64 libfakeroot amd64 1.34-1 [28.9 kB] Get:33 http://localhost:3142/debian unstable/main amd64 fakeroot amd64 1.34-1 [74.0 kB] Get:34 http://localhost:3142/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1 [919 kB] Get:35 http://localhost:3142/debian unstable/main amd64 libbam-dev amd64 0.1.19+dfsg-6 [118 kB] Get:36 http://localhost:3142/debian unstable/main amd64 libio-string-perl all 1.08-4 [12.1 kB] Get:37 http://localhost:3142/debian unstable/main amd64 libdata-stag-perl all 0.14-3 [448 kB] Get:38 http://localhost:3142/debian unstable/main amd64 libbio-perl-perl all 1.7.8-1 [2603 kB] Get:39 http://localhost:3142/debian unstable/main amd64 libmodule-build-perl all 0.423400-2 [252 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 23.5 MB in 0s (153 MB/s) Selecting previously unselected package sensible-utils. (Reading database ... 21779 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.22_all.deb ... Unpacking sensible-utils (0.0.22) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3_amd64.deb ... Unpacking file (1:5.45-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.21-14+b1_amd64.deb ... Unpacking gettext-base (0.21-14+b1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../05-libuchardet0_0.0.8-1+b1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b1) ... 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Adding 'diversion of /usr/bin/config_data to /usr/bin/config_data.diverted by libmodule-build-perl' Adding 'diversion of /usr/share/man/man1/config_data.1.gz to /usr/share/man/man1/config_data.diverted.1.gz by libmodule-build-perl' Unpacking libmodule-build-perl (0.423400-2) ... Selecting previously unselected package libperl-dev:amd64. Preparing to unpack .../37-libperl-dev_5.40.0~rc1-1_amd64.deb ... Unpacking libperl-dev:amd64 (5.40.0~rc1-1) ... Selecting previously unselected package sbuild-build-depends-main-dummy. Preparing to unpack .../38-sbuild-build-depends-main-dummy_0.invalid.0_amd64.deb ... Unpacking sbuild-build-depends-main-dummy (0.invalid.0) ... Setting up libpipeline1:amd64 (1.5.7-2) ... Setting up libicu72:amd64 (72.1-4+b1) ... Setting up bsdextrautils (2.40.1-4) ... Setting up libmagic-mgc (1:5.45-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.15.3) ... Setting up libmagic1t64:amd64 (1:5.45-3) ... Setting up gettext-base (0.21-14+b1) ... Setting up m4 (1.4.19-4) ... Setting up libperl-dev:amd64 (5.40.0~rc1-1) ... Setting up file (1:5.45-3) ... Setting up libfakeroot:amd64 (1.34-1) ... Setting up libelf1t64:amd64 (0.191-1+b1) ... Setting up libmodule-build-perl (0.423400-2) ... Setting up fakeroot (1.34-1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Setting up libio-string-perl (1.08-4) ... Setting up autotools-dev (20220109.1) ... Setting up autopoint (0.21-14) ... Setting up autoconf (2.71-3) ... Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1) ... Setting up dwz (0.15-1+b1) ... Setting up libdata-stag-perl (0.14-3) ... Setting up sensible-utils (0.0.22) ... Setting up libuchardet0:amd64 (0.0.8-1+b1) ... Setting up libbio-perl-perl (1.7.8-1) ... Setting up libxml2:amd64 (2.12.7+dfsg-2) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up gettext (0.21-14+b1) ... Setting up libtool (2.4.7-7) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libbam-dev (0.1.19+dfsg-6) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up groff-base (1.23.0-4) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.12.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.15.3) ... Setting up sbuild-build-depends-main-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.38-11) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 6.1.0-21-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.90-1 (2024-05-03) amd64 (x86_64) Toolchain package versions: binutils_2.42-4 dpkg-dev_1.22.6 g++-13_13.2.0-25 gcc-13_13.2.0-25 libc6-dev_2.38-11 libstdc++-13-dev_13.2.0-25 libstdc++6_14.1.0-1 linux-libc-dev_6.8.12-1 Package versions: adduser_3.137 apt_2.9.4 autoconf_2.71-3 automake_1:1.16.5-1.3 autopoint_0.21-14 autotools-dev_20220109.1 base-files_13.2 base-passwd_3.6.3 bash_5.2.21-2+b1 binutils_2.42-4 binutils-common_2.42-4 binutils-x86-64-linux-gnu_2.42-4 bsdextrautils_2.40.1-4 bsdutils_1:2.40.1-4 build-essential_12.10 bzip2_1.0.8-5.1 coreutils_9.4-3.1 cpp_4:13.2.0-7 cpp-13_13.2.0-25 cpp-13-x86-64-linux-gnu_13.2.0-25 cpp-x86-64-linux-gnu_4:13.2.0-7 dash_0.5.12-8 debconf_1.5.86 debhelper_13.15.3 debian-archive-keyring_2023.4 debianutils_5.17 dh-autoreconf_20 dh-strip-nondeterminism_1.14.0-1 diffutils_1:3.10-1 dirmngr_2.2.43-7 dpkg_1.22.6 dpkg-dev_1.22.6 dwz_0.15-1+b1 eatmydata_131-2 fakeroot_1.34-1 file_1:5.45-3 findutils_4.9.0-6 g++_4:13.2.0-7 g++-13_13.2.0-25 g++-13-x86-64-linux-gnu_13.2.0-25 g++-x86-64-linux-gnu_4:13.2.0-7 gcc_4:13.2.0-7 gcc-13_13.2.0-25 gcc-13-base_13.2.0-25 gcc-13-x86-64-linux-gnu_13.2.0-25 gcc-14-base_14.1.0-1 gcc-x86-64-linux-gnu_4:13.2.0-7 gettext_0.21-14+b1 gettext-base_0.21-14+b1 gnupg_2.2.43-7 gnupg-l10n_2.2.43-7 gnupg-utils_2.2.43-7 gpg_2.2.43-7 gpg-agent_2.2.43-7 gpg-wks-client_2.2.43-7 gpgconf_2.2.43-7 gpgsm_2.2.43-7 gpgv_2.2.43-7 grep_3.11-4 groff-base_1.23.0-4 gzip_1.12-1.1 hostname_3.23+nmu2 init-system-helpers_1.66 intltool-debian_0.35.0+20060710.6 libacl1_2.3.2-2 libapt-pkg6.0t64_2.9.4 libarchive-zip-perl_1.68-1 libasan8_14.1.0-1 libassuan0_2.5.6-1+b1 libatomic1_14.1.0-1 libattr1_1:2.5.2-1 libaudit-common_1:3.1.2-2.1 libaudit1_1:3.1.2-2.1 libbam-dev_0.1.19+dfsg-6 libbinutils_2.42-4 libbio-perl-perl_1.7.8-1 libblkid1_2.40.1-4 libbz2-1.0_1.0.8-5.1 libc-bin_2.38-11 libc-dev-bin_2.38-11 libc-l10n_2.38-11 libc6_2.38-11 libc6-dev_2.38-11 libcap-ng0_0.8.5-1 libcap2_1:2.66-5 libcc1-0_14.1.0-1 libcrypt-dev_1:4.4.36-4 libcrypt1_1:4.4.36-4 libctf-nobfd0_2.42-4 libctf0_2.42-4 libdata-stag-perl_0.14-3 libdb5.3t64_5.3.28+dfsg2-7 libdebconfclient0_0.272 libdebhelper-perl_13.15.3 libdpkg-perl_1.22.6 libeatmydata1_131-2 libelf1t64_0.191-1+b1 libfakeroot_1.34-1 libffi8_3.4.6-1 libfile-stripnondeterminism-perl_1.14.0-1 libgcc-13-dev_13.2.0-25 libgcc-s1_14.1.0-1 libgcrypt20_1.10.3-3 libgdbm-compat4t64_1.23-5.1+b1 libgdbm6t64_1.23-5.1+b1 libgmp10_2:6.3.0+dfsg-2+b1 libgnutls30t64_3.8.5-3 libgomp1_14.1.0-1 libgpg-error0_1.49-2 libgprofng0_2.42-4 libhogweed6t64_3.9.1-2.2 libhwasan0_14.1.0-1 libicu72_72.1-4+b1 libidn2-0_2.3.7-2 libio-string-perl_1.08-4 libisl23_0.26-3+b2 libitm1_14.1.0-1 libjansson4_2.14-2+b2 libksba8_1.6.6-1 libldap-2.5-0_2.5.17+dfsg-1+b1 liblsan0_14.1.0-1 liblz4-1_1.9.4-2 liblzma5_5.6.1+really5.4.5-1 libmagic-mgc_1:5.45-3 libmagic1t64_1:5.45-3 libmd0_1.1.0-2 libmodule-build-perl_0.423400-2 libmount1_2.40.1-4 libmpc3_1.3.1-1+b2 libmpfr6_4.2.1-1+b1 libncursesw6_6.5-2 libnettle8t64_3.9.1-2.2 libnpth0t64_1.6-3.1 libp11-kit0_0.25.3-5 libpam-modules_1.5.3-7 libpam-modules-bin_1.5.3-7 libpam-runtime_1.5.3-7 libpam0g_1.5.3-7 libpcre2-8-0_10.42-4+b1 libperl-dev_5.40.0~rc1-1 libperl5.38t64_5.38.2-5 libperl5.40_5.40.0~rc1-1 libpipeline1_1.5.7-2 libquadmath0_14.1.0-1 libreadline8t64_8.2-4 libsasl2-2_2.1.28+dfsg1-6 libsasl2-modules-db_2.1.28+dfsg1-6 libseccomp2_2.5.5-1 libselinux1_3.5-2+b2 libsemanage-common_3.5-1 libsemanage2_3.5-1+b3 libsepol2_3.5-2+b1 libsframe1_2.42-4 libsmartcols1_2.40.1-4 libsqlite3-0_3.46.0-1 libssl3t64_3.2.1-3 libstdc++-13-dev_13.2.0-25 libstdc++6_14.1.0-1 libsystemd0_256~rc3-7 libtasn1-6_4.19.0-3+b2 libtinfo6_6.5-2 libtool_2.4.7-7 libtsan2_14.1.0-1 libubsan1_14.1.0-1 libuchardet0_0.0.8-1+b1 libudev1_256~rc3-7 libunistring5_1.2-1 libuuid1_2.40.1-4 libxml2_2.12.7+dfsg-2 libxxhash0_0.8.2-2+b1 libzstd1_1.5.5+dfsg2-2 linux-libc-dev_6.8.12-1 locales-all_2.38-11 login_1:4.13+dfsg1-4 m4_1.4.19-4 make_4.3-4.1 man-db_2.12.1-1 mawk_1.3.4.20240123-1 ncurses-base_6.5-2 ncurses-bin_6.5-2 passwd_1:4.13+dfsg1-4 patch_2.7.6-7 perl_5.40.0~rc1-1 perl-base_5.40.0~rc1-1 perl-modules-5.38_5.38.2-5 perl-modules-5.40_5.40.0~rc1-1 pinentry-curses_1.2.1-3+b2 po-debconf_1.0.21+nmu1 readline-common_8.2-4 rpcsvc-proto_1.4.3-1 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.9-2 sensible-utils_0.0.22 sysvinit-utils_3.09-1 tar_1.35+dfsg-3 usr-is-merged_39 util-linux_2.40.1-4 xz-utils_5.6.1+really5.4.5-1 zlib1g_1:1.3.dfsg+really1.3.1-1 zlib1g-dev_1:1.3.dfsg+really1.3.1-1 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: libbio-samtools-perl Binary: libbio-samtools-perl Architecture: any Version: 1.43-5 Maintainer: Debian Perl Group Uploaders: Charles Plessy Homepage: https://metacpan.org/release/Bio-SamTools Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/perl-team/modules/packages/libbio-samtools-perl Vcs-Git: https://salsa.debian.org/perl-team/modules/packages/libbio-samtools-perl.git Testsuite: autopkgtest-pkg-perl Build-Depends: debhelper-compat (= 13), libbam-dev, libbio-perl-perl , libmodule-build-perl, perl-xs-dev, perl:native, zlib1g-dev Package-List: libbio-samtools-perl deb perl optional arch=any Checksums-Sha1: 140779726f17ef29f1a6028b34ed836d0a85f24c 340833 libbio-samtools-perl_1.43.orig.tar.gz 9fd7cc61c130c2572d782e1433950b32dbe984d1 9360 libbio-samtools-perl_1.43-5.debian.tar.xz Checksums-Sha256: 7085ee5e97ad75dbbebd8583072d67b2b06d29e7a9f9741c9ac58dabe300d3fd 340833 libbio-samtools-perl_1.43.orig.tar.gz 51d780410bbdae748dc6ab0d4134872d9ccf7397b4d43583d552afc5d1649865 9360 libbio-samtools-perl_1.43-5.debian.tar.xz Files: d36d7bfe91d6eaa8d220a2cb08d04a94 340833 libbio-samtools-perl_1.43.orig.tar.gz 776ffbac8666f9382a4ae3e8ad76667a 9360 libbio-samtools-perl_1.43-5.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmXwxWURHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtHAkg/+PQPjhQsf9eS5Tiy0STA5jPSAwXr4Bext BHpSigEFJixsNJrgnzfhSiuPd1BFy7HbAGRWthOFlx8KThATn43oE/w1ga0MPvv1 RFsHM13X1yUphqWWiNdAyQCum3v9IySJPIKTWoEbTK5tLsxy1FAA6zeO8kItog9W 2cD4cazn9w/Kc7IJCVlpWVjbVkqgtHJoBK+TORpgmVVROoWXScYB2zauCy5Y4bVs xfSIH6cNMcEIlFxIkck1g5DpAI95GIE4nYw2+VpigaPZuVOaSMbVRsAsRytsnI8X DjrZ+mSmDE+ixQiBGOjJPwgmOEKTp9aYJiiqmXlv5IOYHJDcvJwkBpc8hfK9lIIE Gkphu64wkS7L28VjlsBv7Se3lvHA8hrcwOw137qBxsDu8hYUx1x0ivO3Dkp3oDDO Ua0J77QZX9DuN60i4H6ZGE2yKX0+ZOhrXkJgfk5Ua1LvQcEku/X/uI6eLkzkV1y7 NtDRVm7xajq5NOaSqUQEuluQNsh7Nar/9jcdh2K+uxKBiQteIKpHJn5cq29TikfH t6ff38dRkVcGCyLPHpTYdKPxZRyiu/7r8i8BFOuNCnQR0HNI+8OFHNOmSxOT0o6Q FCnLE8D1mfQrEcgTolSMmex5qmDsODRq8KKH1VBdaN6zKNnU14Ob8Rx4RAvSZHKo XIPnCArYmUk= =r778 -----END PGP SIGNATURE----- gpgv: Signature made Tue Mar 12 21:13:09 2024 UTC gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./libbio-samtools-perl_1.43-5.dsc: no acceptable signature found dpkg-source: info: extracting libbio-samtools-perl in /<> dpkg-source: info: unpacking libbio-samtools-perl_1.43.orig.tar.gz dpkg-source: info: unpacking libbio-samtools-perl_1.43-5.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying typo.patch dpkg-source: info: applying 0001-Lift-prototypes-of-bam_view1-and-bam_sort_core-from-.patch Check disk space ---------------- Sufficient free space for build Hack binNMU version ------------------- Created changelog entry for binNMU version 1.43-5+b1 +------------------------------------------------------------------------------+ | Starting Timed Build Commands | +------------------------------------------------------------------------------+ /usr/share/debomatic/sbuildcommands/starting-build-commands/no-network libbio-samtools-perl_1.43-5 perl-5.40 amd64 ------------------------------------------------------------------------------------------------------------------ I: Finished running '/usr/share/debomatic/sbuildcommands/starting-build-commands/no-network libbio-samtools-perl_1.43-5 perl-5.40 amd64'. Finished processing commands. -------------------------------------------------------------------------------- User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf HOME=/sbuild-nonexistent LANG=en_GB.UTF-8 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=/<> SCHROOT_ALIAS_NAME=perl-5.40-amd64-debomatic SCHROOT_CHROOT_NAME=perl-5.40-amd64-debomatic SCHROOT_COMMAND=env SCHROOT_GID=110 SCHROOT_GROUP=sbuild SCHROOT_SESSION_ID=perl-5.40-amd64-debomatic-e0e533b3-491b-4b7c-a92e-4fe6b049149a SCHROOT_UID=1002 SCHROOT_USER=debomatic SHELL=/bin/sh USER=debomatic dpkg-buildpackage ----------------- Command: dpkg-buildpackage --sanitize-env -us -uc -mDebian Perl autobuilder -B -rfakeroot -Zxz dpkg-buildpackage: info: source package libbio-samtools-perl dpkg-buildpackage: info: source version 1.43-5+b1 dpkg-buildpackage: info: source distribution perl-5.40 dpkg-source -Zxz --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_clean debian/rules binary-arch dh binary-arch dh_update_autotools_config -a dh_autoreconf -a debian/rules override_dh_auto_configure make[1]: Entering directory '/<>' SAMTOOLS=/usr/include/samtools dh_auto_configure /usr/bin/perl Build.PL --installdirs vendor --config "optimize=-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2" --config "ld=x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wl,-z,relro -Wl,-z,now" Found /usr/include/samtools/bam.h and //lib/libbam.a. Created MYMETA.yml and MYMETA.json Creating new 'Build' script for 'Bio-SamTools' version '1.43' make[1]: Leaving directory '/<>' dh_auto_build -a /usr/bin/perl Build Building Bio-SamTools x86_64-linux-gnu-gcc -I/usr/include/samtools -Ic_bin -I/usr/lib/x86_64-linux-gnu/perl/5.40/CORE -fPIC '-D_IOLIB=2' '-D_FILE_OFFSET_BITS=64' '-Wformat=0' -c -D_REENTRANT -D_GNU_SOURCE -DDEBIAN -fwrapv -fno-strict-aliasing -pipe -I/usr/local/include -D_LARGEFILE_SOURCE '-D_FILE_OFFSET_BITS=64' -g -O2 '-Werror=implicit-function-declaration' '-ffile-prefix-map=/<>=.' -fstack-protector-strong -fstack-clash-protection -Wformat '-Werror=format-security' -fcf-protection -g -O2 '-Werror=implicit-function-declaration' '-ffile-prefix-map=/<>=.' -fstack-protector-strong -fstack-clash-protection -Wformat '-Werror=format-security' -fcf-protection -Wdate-time '-D_FORTIFY_SOURCE=2' -o c_bin/bam2bedgraph.o c_bin/bam2bedgraph.c x86_64-linux-gnu-gcc -I/usr/include/samtools -Ic_bin -I/usr/lib/x86_64-linux-gnu/perl/5.40/CORE '-DVERSION="1.43"' '-DXS_VERSION="1.43"' -fPIC '-D_IOLIB=2' '-D_FILE_OFFSET_BITS=64' '-Wformat=0' -c -D_REENTRANT -D_GNU_SOURCE -DDEBIAN -fwrapv -fno-strict-aliasing -pipe -I/usr/local/include -D_LARGEFILE_SOURCE '-D_FILE_OFFSET_BITS=64' -g -O2 '-Werror=implicit-function-declaration' '-ffile-prefix-map=/<>=.' -fstack-protector-strong -fstack-clash-protection -Wformat '-Werror=format-security' -fcf-protection -g -O2 '-Werror=implicit-function-declaration' '-ffile-prefix-map=/<>=.' -fstack-protector-strong -fstack-clash-protection -Wformat '-Werror=format-security' -fcf-protection -Wdate-time '-D_FORTIFY_SOURCE=2' -o lib/Bio/DB/Sam.o lib/Bio/DB/Sam.c ExtUtils::Mkbootstrap::Mkbootstrap('blib/arch/auto/Bio/DB/Sam/Sam.bs') x86_64-linux-gnu-gcc -g -O2 '-Werror=implicit-function-declaration' '-ffile-prefix-map=/<>=.' -fstack-protector-strong -fstack-clash-protection -Wformat '-Werror=format-security' -fcf-protection -Wl,-z,relro -Wl,-z,now -shared -L/usr/local/lib -fstack-protector-strong -o blib/arch/auto/Bio/DB/Sam/Sam.so lib/Bio/DB/Sam.o c_bin/bam2bedgraph.o -L//lib -lbam -lpthread -lz make[1]: Entering directory '/<>/c_bin' gcc -g -Wall -O2 -fPIC -o bam2bedgraph bam2bedgraph.o -Wl,-z,relro -Wl,-z,now -L//lib -lbam -lpthread -lm -lz make[1]: Leaving directory '/<>/c_bin' dh_auto_test -a /usr/bin/perl Build test --verbose 1 make[1]: Entering directory '/<>/c_bin' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/<>/c_bin' [fai_load] build FASTA index. [bam_parse_region] fail to determine the sequence name. t/01sam.t .. 1..268 # Running under perl version 5.040000 for linux # Current time local: Sat Jun 1 21:49:33 2024 # Current time GMT: Sat Jun 1 21:49:33 2024 # Using Test.pm version 1.31 ok 1 ok 2 ok 3 ok 4 ok 5 ok 6 ok 7 ok 8 ok 9 ok 10 ok 11 ok 12 ok 13 ok 14 ok 15 ok 16 ok 17 ok 18 ok 19 ok 20 ok 21 ok 22 ok 23 ok 24 ok 25 ok 26 ok 27 ok 28 ok 29 ok 30 ok 31 ok 32 ok 33 ok 34 ok 35 ok 36 ok 37 ok 38 ok 39 ok 40 ok 41 ok 42 ok 43 ok 44 ok 45 ok 46 ok 47 ok 48 ok 49 ok 50 ok 51 ok 52 ok 53 ok 54 ok 55 ok 56 ok 57 ok 58 ok 59 ok 60 ok 61 ok 62 ok 63 ok 64 ok 65 ok 66 ok 67 ok 68 ok 69 ok 70 ok 71 ok 72 ok 73 ok 74 ok 75 ok 76 ok 77 ok 78 ok 79 ok 80 ok 81 ok 82 ok 83 ok 84 ok 85 ok 86 ok 87 ok 88 ok 89 ok 90 ok 91 ok 92 ok 93 ok 94 ok 95 ok 96 ok 97 ok 98 ok 99 ok 100 ok 101 ok 102 ok 103 ok 104 ok 105 ok 106 ok 107 ok 108 ok 109 ok 110 ok 111 ok 112 ok 113 ok 114 ok 115 ok 116 ok 117 ok 118 ok 119 ok 120 ok 121 ok 122 ok 123 ok 124 ok 125 ok 126 ok 127 ok 128 ok 129 ok 130 ok 131 ok 132 ok 133 ok 134 ok 135 ok 136 ok 137 ok 138 ok 139 ok 140 ok 141 ok 142 ok 143 ok 144 ok 145 ok 146 ok 147 ok 148 ok 149 ok 150 ok 151 ok 152 ok 153 ok 154 ok 155 ok 156 ok 157 ok 158 ok 159 ok 160 ok 161 ok 162 ok 163 ok 164 ok 165 ok 166 ok 167 ok 168 ok 169 ok 170 ok 171 ok 172 ok 173 ok 174 ok 175 ok 176 ok 177 ok 178 ok 179 ok 180 ok 181 ok 182 ok 183 ok 184 ok 185 ok 186 ok 187 ok 188 ok 189 ok 190 ok 191 ok 192 ok 193 ok 194 ok 195 ok 196 ok 197 ok 198 ok 199 ok 200 ok 201 ok 202 ok 203 ok 204 ok 205 ok 206 ok 207 ok 208 ok 209 ok 210 ok 211 ok 212 ok 213 ok 214 ok 215 ok 216 ok 217 ok 218 ok 219 ok 220 ok 221 ok 222 ok 223 ok 224 ok 225 ok 226 ok 227 ok 228 ok 229 ok 230 ok 231 ok 232 ok 233 ok 234 ok 235 ok 236 ok 237 ok 238 ok 239 ok 240 ok 241 ok 242 ok 243 ok 244 ok 245 ok 246 ok 247 ok 248 ok 249 ok 250 ok 251 ok 252 ok 253 ok 254 ok 255 ok 256 ok 257 ok 258 ok 259 ok 260 ok 261 ok 262 ok 263 ok 264 ok 265 ok 266 ok 267 ok 268 ok All tests successful. Files=1, Tests=268, 1 wallclock secs ( 0.02 usr 0.01 sys + 0.43 cusr 0.06 csys = 0.52 CPU) Result: PASS create-stamp debian/debhelper-build-stamp dh_prep -a dh_auto_install --destdir=debian/libbio-samtools-perl/ -a /usr/bin/perl Build install --destdir /<>/debian/libbio-samtools-perl --create_packlist 0 Building Bio-SamTools make[1]: Entering directory '/<>/c_bin' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/<>/c_bin' Files found in blib/arch: installing files in blib/lib into architecture dependent library tree Installing /<>/debian/libbio-samtools-perl/usr/lib/x86_64-linux-gnu/perl5/5.40/auto/Bio/DB/Sam/Sam.bs Installing /<>/debian/libbio-samtools-perl/usr/lib/x86_64-linux-gnu/perl5/5.40/auto/Bio/DB/Sam/Sam.so Installing /<>/debian/libbio-samtools-perl/usr/bin/bam2bedgraph Installing /<>/debian/libbio-samtools-perl/usr/lib/x86_64-linux-gnu/perl5/5.40/Bio/DB/Sam.pm Installing /<>/debian/libbio-samtools-perl/usr/lib/x86_64-linux-gnu/perl5/5.40/Bio/DB/Bam/Pileup.pm Installing /<>/debian/libbio-samtools-perl/usr/lib/x86_64-linux-gnu/perl5/5.40/Bio/DB/Bam/Query.pm Installing /<>/debian/libbio-samtools-perl/usr/lib/x86_64-linux-gnu/perl5/5.40/Bio/DB/Bam/FetchIterator.pm Installing /<>/debian/libbio-samtools-perl/usr/lib/x86_64-linux-gnu/perl5/5.40/Bio/DB/Bam/ReadIterator.pm Installing /<>/debian/libbio-samtools-perl/usr/lib/x86_64-linux-gnu/perl5/5.40/Bio/DB/Bam/Target.pm Installing /<>/debian/libbio-samtools-perl/usr/lib/x86_64-linux-gnu/perl5/5.40/Bio/DB/Bam/Alignment.pm Installing /<>/debian/libbio-samtools-perl/usr/lib/x86_64-linux-gnu/perl5/5.40/Bio/DB/Bam/PileupWrapper.pm Installing /<>/debian/libbio-samtools-perl/usr/lib/x86_64-linux-gnu/perl5/5.40/Bio/DB/Bam/AlignWrapper.pm Installing /<>/debian/libbio-samtools-perl/usr/lib/x86_64-linux-gnu/perl5/5.40/Bio/DB/Sam/Constants.pm Installing /<>/debian/libbio-samtools-perl/usr/lib/x86_64-linux-gnu/perl5/5.40/Bio/DB/Sam/SamToGBrowse.pm Installing /<>/debian/libbio-samtools-perl/usr/lib/x86_64-linux-gnu/perl5/5.40/Bio/DB/Sam/Segment.pm Installing /<>/debian/libbio-samtools-perl/usr/share/man/man3/Bio::DB::Sam::Constants.3pm Installing /<>/debian/libbio-samtools-perl/usr/share/man/man3/Bio::DB::Bam::PileupWrapper.3pm Installing /<>/debian/libbio-samtools-perl/usr/share/man/man3/Bio::DB::Sam.3pm Installing /<>/debian/libbio-samtools-perl/usr/share/man/man3/Bio::DB::Bam::Target.3pm Installing /<>/debian/libbio-samtools-perl/usr/share/man/man3/Bio::DB::Bam::Alignment.3pm Installing /<>/debian/libbio-samtools-perl/usr/share/man/man3/Bio::DB::Bam::Query.3pm Installing /<>/debian/libbio-samtools-perl/usr/share/man/man3/Bio::DB::Bam::AlignWrapper.3pm Installing /<>/debian/libbio-samtools-perl/usr/share/man/man3/Bio::DB::Bam::Pileup.3pm Installing /<>/debian/libbio-samtools-perl/usr/bin/bamToGBrowse.pl Installing /<>/debian/libbio-samtools-perl/usr/bin/chrom_sizes.pl Installing /<>/debian/libbio-samtools-perl/usr/bin/genomeCoverageBed.pl dh_installdocs -a dh_installchangelogs -a dh_installman -a dh_lintian -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_missing -a dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'libbio-samtools-perl' in '../libbio-samtools-perl_1.43-5+b1_amd64.deb'. dpkg-deb: building package 'libbio-samtools-perl-dbgsym' in '../libbio-samtools-perl-dbgsym_1.43-5+b1_amd64.deb'. dpkg-genbuildinfo --build=any -O../libbio-samtools-perl_1.43-5+b1_amd64.buildinfo dpkg-genchanges --build=any -mDebian Perl autobuilder -O../libbio-samtools-perl_1.43-5+b1_amd64.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source -Zxz --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2024-06-01T21:49:36Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ libbio-samtools-perl_1.43-5+b1_amd64.changes: --------------------------------------------- Format: 1.8 Date: Sat, 01 Jun 2024 21:49:30 +0000 Source: libbio-samtools-perl (1.43-5) Binary: libbio-samtools-perl libbio-samtools-perl-dbgsym Binary-Only: yes Architecture: amd64 Version: 1.43-5+b1 Distribution: perl-5.40 Urgency: low Maintainer: Debian Perl autobuilder Changed-By: Debian Perl autobuilder Description: libbio-samtools-perl - Perl interface to SamTools library for DNA sequencing Changes: libbio-samtools-perl (1.43-5+b1) perl-5.40; urgency=low, binary-only=yes . * Binary-only non-maintainer upload for amd64; no source changes. * 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Package: libbio-samtools-perl-dbgsym Source: libbio-samtools-perl (1.43-5) Version: 1.43-5+b1 Auto-Built-Package: debug-symbols Architecture: amd64 Maintainer: Debian Perl Group Installed-Size: 157 Depends: libbio-samtools-perl (= 1.43-5+b1) Section: debug Priority: optional Description: debug symbols for libbio-samtools-perl Build-Ids: 160e9acb786eef76bc432d673fe9c2c2986531d2 ec3eb5bc08e8c3a5ae5144c75b95ef8f74b4beb0 drwxr-xr-x root/root 0 2024-06-01 21:49 ./ drwxr-xr-x root/root 0 2024-06-01 21:49 ./usr/ drwxr-xr-x root/root 0 2024-06-01 21:49 ./usr/lib/ drwxr-xr-x root/root 0 2024-06-01 21:49 ./usr/lib/debug/ drwxr-xr-x root/root 0 2024-06-01 21:49 ./usr/lib/debug/.build-id/ drwxr-xr-x root/root 0 2024-06-01 21:49 ./usr/lib/debug/.build-id/16/ -rw-r--r-- root/root 121128 2024-06-01 21:49 ./usr/lib/debug/.build-id/16/0e9acb786eef76bc432d673fe9c2c2986531d2.debug drwxr-xr-x root/root 0 2024-06-01 21:49 ./usr/lib/debug/.build-id/ec/ -rw-r--r-- root/root 20568 2024-06-01 21:49 ./usr/lib/debug/.build-id/ec/3eb5bc08e8c3a5ae5144c75b95ef8f74b4beb0.debug drwxr-xr-x root/root 0 2024-06-01 21:49 ./usr/lib/debug/.dwz/ drwxr-xr-x root/root 0 2024-06-01 21:49 ./usr/lib/debug/.dwz/x86_64-linux-gnu/ -rw-r--r-- root/root 3496 2024-06-01 21:49 ./usr/lib/debug/.dwz/x86_64-linux-gnu/libbio-samtools-perl.debug drwxr-xr-x root/root 0 2024-06-01 21:49 ./usr/share/ drwxr-xr-x root/root 0 2024-06-01 21:49 ./usr/share/doc/ lrwxrwxrwx root/root 0 2024-06-01 21:49 ./usr/share/doc/libbio-samtools-perl-dbgsym -> libbio-samtools-perl libbio-samtools-perl_1.43-5+b1_amd64.deb ---------------------------------------- new Debian package, version 2.0. size 181524 bytes: control archive=1780 bytes. 1030 bytes, 20 lines control 2628 bytes, 31 lines md5sums Package: libbio-samtools-perl Source: libbio-samtools-perl (1.43-5) Version: 1.43-5+b1 Architecture: amd64 Maintainer: Debian Perl Group Installed-Size: 587 Depends: perl (>= 5.40.0~rc1-1), perlapi-5.40.0, libc6 (>= 2.34), zlib1g (>= 1:1.2.3.3), libbio-perl-perl Enhances: gbrowse, samtools Section: perl Priority: optional Homepage: https://metacpan.org/release/Bio-SamTools Description: Perl interface to SamTools library for DNA sequencing Bio::SamTools provides a Perl interface to the libbam library for indexed and unindexed SAM/BAM sequence alignment databases. It provides support for retrieving information on individual alignments, read pairs, and alignment coverage information across large regions. It also provides callback functionality for calling SNPs and performing other base-by-base functions. Most operations are compatible with the BioPerl Bio::SeqFeatureI interface, allowing BAM files to be used as a backend to the GBrowse genome browser application. drwxr-xr-x root/root 0 2024-06-01 21:49 ./ drwxr-xr-x root/root 0 2024-06-01 21:49 ./usr/ drwxr-xr-x root/root 0 2024-06-01 21:49 ./usr/bin/ -rwxr-xr-x root/root 130688 2024-06-01 21:49 ./usr/bin/bam2bedgraph -rwxr-xr-x root/root 2087 2024-06-01 21:49 ./usr/bin/bamToGBrowse.pl -rwxr-xr-x root/root 331 2024-06-01 21:49 ./usr/bin/chrom_sizes.pl -rwxr-xr-x root/root 283 2024-06-01 21:49 ./usr/bin/genomeCoverageBed.pl drwxr-xr-x root/root 0 2024-06-01 21:49 ./usr/lib/ drwxr-xr-x root/root 0 2024-06-01 21:49 ./usr/lib/x86_64-linux-gnu/ drwxr-xr-x root/root 0 2024-06-01 21:49 ./usr/lib/x86_64-linux-gnu/perl5/ drwxr-xr-x root/root 0 2024-06-01 21:49 ./usr/lib/x86_64-linux-gnu/perl5/5.40/ drwxr-xr-x root/root 0 2024-06-01 21:49 ./usr/lib/x86_64-linux-gnu/perl5/5.40/Bio/ drwxr-xr-x root/root 0 2024-06-01 21:49 ./usr/lib/x86_64-linux-gnu/perl5/5.40/Bio/DB/ drwxr-xr-x root/root 0 2024-06-01 21:49 ./usr/lib/x86_64-linux-gnu/perl5/5.40/Bio/DB/Bam/ -rw-r--r-- root/root 11925 2024-06-01 21:49 ./usr/lib/x86_64-linux-gnu/perl5/5.40/Bio/DB/Bam/AlignWrapper.pm -rw-r--r-- root/root 17627 2024-06-01 21:49 ./usr/lib/x86_64-linux-gnu/perl5/5.40/Bio/DB/Bam/Alignment.pm -rw-r--r-- root/root 335 2024-06-01 21:49 ./usr/lib/x86_64-linux-gnu/perl5/5.40/Bio/DB/Bam/FetchIterator.pm -rw-r--r-- root/root 2404 2024-06-01 21:49 ./usr/lib/x86_64-linux-gnu/perl5/5.40/Bio/DB/Bam/Pileup.pm -rw-r--r-- root/root 1891 2024-06-01 21:49 ./usr/lib/x86_64-linux-gnu/perl5/5.40/Bio/DB/Bam/PileupWrapper.pm -rw-r--r-- root/root 4636 2024-06-01 21:49 ./usr/lib/x86_64-linux-gnu/perl5/5.40/Bio/DB/Bam/Query.pm -rw-r--r-- root/root 402 2024-06-01 21:49 ./usr/lib/x86_64-linux-gnu/perl5/5.40/Bio/DB/Bam/ReadIterator.pm -rw-r--r-- root/root 1046 2024-06-01 21:49 ./usr/lib/x86_64-linux-gnu/perl5/5.40/Bio/DB/Bam/Target.pm -rw-r--r-- root/root 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./usr/lib/x86_64-linux-gnu/perl5/5.40/auto/Bio/DB/Sam/Sam.so drwxr-xr-x root/root 0 2024-06-01 21:49 ./usr/share/ drwxr-xr-x root/root 0 2024-06-01 21:49 ./usr/share/doc/ drwxr-xr-x root/root 0 2024-06-01 21:49 ./usr/share/doc/libbio-samtools-perl/ -rw-r--r-- root/root 212 2024-06-01 21:49 ./usr/share/doc/libbio-samtools-perl/changelog.Debian.amd64.gz -rw-r--r-- root/root 1018 2024-06-01 21:49 ./usr/share/doc/libbio-samtools-perl/changelog.Debian.gz -rw-r--r-- root/root 3563 2016-02-12 19:31 ./usr/share/doc/libbio-samtools-perl/changelog.gz -rw-r--r-- root/root 11606 2024-03-12 21:11 ./usr/share/doc/libbio-samtools-perl/copyright drwxr-xr-x root/root 0 2024-06-01 21:49 ./usr/share/lintian/ drwxr-xr-x root/root 0 2024-06-01 21:49 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 132 2024-03-12 21:11 ./usr/share/lintian/overrides/libbio-samtools-perl drwxr-xr-x root/root 0 2024-06-01 21:49 ./usr/share/man/ drwxr-xr-x root/root 0 2024-06-01 21:49 ./usr/share/man/man3/ -rw-r--r-- root/root 1609 2024-06-01 21:49 ./usr/share/man/man3/Bio::DB::Bam::AlignWrapper.3pm.gz -rw-r--r-- root/root 6585 2024-06-01 21:49 ./usr/share/man/man3/Bio::DB::Bam::Alignment.3pm.gz -rw-r--r-- root/root 1989 2024-06-01 21:49 ./usr/share/man/man3/Bio::DB::Bam::Pileup.3pm.gz -rw-r--r-- root/root 1330 2024-06-01 21:49 ./usr/share/man/man3/Bio::DB::Bam::PileupWrapper.3pm.gz -rw-r--r-- root/root 1993 2024-06-01 21:49 ./usr/share/man/man3/Bio::DB::Bam::Query.3pm.gz -rw-r--r-- root/root 1013 2024-06-01 21:49 ./usr/share/man/man3/Bio::DB::Bam::Target.3pm.gz -rw-r--r-- root/root 19667 2024-06-01 21:49 ./usr/share/man/man3/Bio::DB::Sam.3pm.gz -rw-r--r-- root/root 1479 2024-06-01 21:49 ./usr/share/man/man3/Bio::DB::Sam::Constants.3pm.gz +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not cleaning session: cloned chroot in use +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: any Build-Space: 3976 Build-Time: 6 Distribution: perl-5.40 Host Architecture: amd64 Install-Time: 4 Job: /srv/debomatic/incoming/libbio-samtools-perl_1.43-5.dsc Machine Architecture: amd64 Package: libbio-samtools-perl Package-Time: 18 Source-Version: 1.43-5 Space: 3976 Status: successful Version: 1.43-5+b1 -------------------------------------------------------------------------------- Finished at 2024-06-01T21:49:36Z Build needed 00:00:18, 3976k disk space