Fri Aug 8 00:08:06 UTC 2025 I: starting to build libbio-tools-run-alignment-tcoffee-perl/trixie/arm64 on jenkins on '2025-08-08 00:07' Fri Aug 8 00:08:06 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_3/108974/console.log Fri Aug 8 00:08:06 UTC 2025 I: Downloading source for trixie/libbio-tools-run-alignment-tcoffee-perl=1.7.4-3 --2025-08-08 00:08:07-- http://deb.debian.org/debian/pool/main/libb/libbio-tools-run-alignment-tcoffee-perl/libbio-tools-run-alignment-tcoffee-perl_1.7.4-3.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2533 (2.5K) [text/prs.lines.tag] Saving to: ‘libbio-tools-run-alignment-tcoffee-perl_1.7.4-3.dsc’ 0K .. 100% 287M=0s 2025-08-08 00:08:07 (287 MB/s) - ‘libbio-tools-run-alignment-tcoffee-perl_1.7.4-3.dsc’ saved [2533/2533] Fri Aug 8 00:08:07 UTC 2025 I: libbio-tools-run-alignment-tcoffee-perl_1.7.4-3.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: libbio-tools-run-alignment-tcoffee-perl Binary: libbio-tools-run-alignment-tcoffee-perl Architecture: all Version: 1.7.4-3 Maintainer: Debian Perl Group Uploaders: David Miguel Susano Pinto Homepage: https://metacpan.org/release/Bio-Tools-Run-Alignment-TCoffee Standards-Version: 4.6.0 Vcs-Browser: https://salsa.debian.org/perl-team/modules/packages/libbio-tools-run-alignment-tcoffee-perl Vcs-Git: https://salsa.debian.org/perl-team/modules/packages/libbio-tools-run-alignment-tcoffee-perl.git Testsuite: autopkgtest-pkg-perl Build-Depends: debhelper-compat (= 13) Build-Depends-Indep: clustalw , libbio-perl-perl , libbio-perl-run-perl , libdevel-checkbin-perl, libtest-exception-perl , perl, t-coffee Package-List: libbio-tools-run-alignment-tcoffee-perl deb science optional arch=all Checksums-Sha1: dda94eb00899c2865e61c7feb6205971c317a26a 29373 libbio-tools-run-alignment-tcoffee-perl_1.7.4.orig.tar.gz 9cfe1c2bfcc88a86fff487599a91d70fd296550f 2536 libbio-tools-run-alignment-tcoffee-perl_1.7.4-3.debian.tar.xz Checksums-Sha256: 3d8b41b9701933249cde26dd0e8a919958b218f1f585183a7a225e6a254d6523 29373 libbio-tools-run-alignment-tcoffee-perl_1.7.4.orig.tar.gz 4935d6d288109914fd62dab352c8607fdb6f98c6d1d86051bcb3aee6a4fd391a 2536 libbio-tools-run-alignment-tcoffee-perl_1.7.4-3.debian.tar.xz Files: 49c2a232f3c64b8a4add2560f1c0322b 29373 libbio-tools-run-alignment-tcoffee-perl_1.7.4.orig.tar.gz 9166dd5e7ea488e1517195b5b459cd14 2536 libbio-tools-run-alignment-tcoffee-perl_1.7.4-3.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEsjhixBXWVlpOhsvXV5wWDUyeI+gFAmNJeyYACgkQV5wWDUye I+jWxxAAn5gP4C1VG50fdXjUx+a0nAUTUQEM6Vv5yKxmb1+bBM8j8d8gsxHt7I+x zLWEutCiBLRpK71vibCkt2uLqvmmhNj2pvpvmsjneuLfqZS3UDYIjWd0XzGCcu5V 7oqI25YWatKjqQrn3lW0rdutyo3MF4jYizYB4XbJB07Fx2rZ9FR6X1SnAYPfMeXu Zt6ID0SvI7vY5egSSyiuT4at3WZvcTlutGUZIVCJomnItqgXqImeNu5eY9WlYzuQ QBxCdWFaHfgbsZiFnGnD9gq6eYU67Fs6i2teloXrilbL1NjL2tX5sMrdwV0T7eOR kw9+LHUpGM3c+4BeQ+LmFQABcPFkHGf/mrFgXlsoVgerRmbcSxHQWewD4N7Xp+z8 CDbfCKjKXsUY1YbbeXx1WurBwUQdPF5ynytmJmbgYTc3VmmrtW3Yx3lTfgRpeHdU hvHzVtTyFHUM2tcSoVKLJM7SHgnU7mxakVXVButZIS3oFfsKJ6oF6XT1qEuCU61w bjH5nk37DSdNRKhVudfWkH+hmQARQQ6OgsbSzEltH4TN815A2GNVKRkXmhYYUqCb VlbhP8dglJPv9sywKH6sogsSFKA1wycA+cew77Kfk4DlTZjr85IDfC4O93LdKHJz oR0pfJjQmmSFaVW9DYLByf6MIy5vISXxrRx3cbmArtPGPFshvZ8= =0S/o -----END PGP SIGNATURE----- Fri Aug 8 00:08:07 UTC 2025 I: Checking whether the package is not for us Fri Aug 8 00:08:07 UTC 2025 I: Starting 1st build on remote node codethink03-arm64.debian.net. Fri Aug 8 00:08:07 UTC 2025 I: Preparing to do remote build '1' on codethink03-arm64.debian.net. Fri Aug 8 00:09:06 UTC 2025 I: Deleting $TMPDIR on codethink03-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Wed Sep 9 18:31:08 -12 2026 I: pbuilder-time-stamp: 1789021868 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [libbio-tools-run-alignment-tcoffee-perl_1.7.4-3.dsc] I: copying [./libbio-tools-run-alignment-tcoffee-perl_1.7.4.orig.tar.gz] I: copying [./libbio-tools-run-alignment-tcoffee-perl_1.7.4-3.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./libbio-tools-run-alignment-tcoffee-perl_1.7.4-3.dsc: no acceptable signature found dpkg-source: info: extracting libbio-tools-run-alignment-tcoffee-perl in libbio-tools-run-alignment-tcoffee-perl-1.7.4 dpkg-source: info: unpacking libbio-tools-run-alignment-tcoffee-perl_1.7.4.orig.tar.gz dpkg-source: info: unpacking libbio-tools-run-alignment-tcoffee-perl_1.7.4-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying doc-typos.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2214685/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='bc7197f0f73f4e5dbf77c63b7242157d' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='2214685' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.TgDpOUBT/pbuilderrc_3x7h --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.TgDpOUBT/b1 --logfile b1/build.log libbio-tools-run-alignment-tcoffee-perl_1.7.4-3.dsc' SUDO_GID='109' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink03-arm64 6.1.0-37-cloud-arm64 #1 SMP Debian 6.1.140-1 (2025-05-22) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 May 12 2025 /bin -> usr/bin I: user script /srv/workspace/pbuilder/2214685/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), clustalw, libbio-perl-perl, libbio-perl-run-perl, libdevel-checkbin-perl, libtest-exception-perl, perl, t-coffee dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19965 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on clustalw; however: Package clustalw is not installed. pbuilder-satisfydepends-dummy depends on libbio-perl-perl; however: Package libbio-perl-perl is not installed. pbuilder-satisfydepends-dummy depends on libbio-perl-run-perl; however: Package libbio-perl-run-perl is not installed. pbuilder-satisfydepends-dummy depends on libdevel-checkbin-perl; however: Package libdevel-checkbin-perl is not installed. pbuilder-satisfydepends-dummy depends on libtest-exception-perl; however: Package libtest-exception-perl is not installed. pbuilder-satisfydepends-dummy depends on t-coffee; however: Package t-coffee is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} clustalw{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libbio-perl-perl{a} libbio-perl-run-perl{a} libdata-stag-perl{a} libdebhelper-perl{a} libdevel-checkbin-perl{a} libelf1t64{a} libfile-sort-perl{a} libfile-stripnondeterminism-perl{a} libio-pty-perl{a} libio-string-perl{a} libipc-run-perl{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libsub-uplevel-perl{a} libtest-exception-perl{a} libtool{a} libuchardet0{a} libunistring5{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} t-coffee{a} The following packages are RECOMMENDED but will NOT be installed: amap-align clustalo curl dialign-tx fsa kalign libace-perl libalgorithm-diff-perl libalgorithm-munkres-perl libarchive-cpio-perl libarray-compare-perl libbio-asn1-entrezgene-perl libclone-perl libconvert-binary-c-perl libdbd-mysql-perl libdbd-pg-perl libdbd-sqlite3-perl libgd-perl libgraph-perl libgraphviz-perl libhtml-parser-perl libhtml-tableextract-perl liblist-moreutils-perl libltdl-dev libmail-sendmail-perl libmldbm-perl libpostscript-perl libset-scalar-perl libsoap-lite-perl libsort-naturally-perl libspreadsheet-parseexcel-perl libspreadsheet-writeexcel-perl libsvg-graph-perl libsvg-perl liburi-perl libwww-perl libxml-dom-xpath-perl libxml-libxml-perl libxml-libxslt-perl libxml-parser-perl libxml-perl libxml-sax-perl libxml-sax-writer-perl libxml-simple-perl libxml-twig-perl libxml-writer-perl lynx mafft muscle mustang ncbi-blast+ perl-tk poa prank probcons proda tm-align wget 0 packages upgraded, 41 newly installed, 0 to remove and 0 not upgraded. Need to get 15.9 MB of archives. After unpacking 60.2 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main arm64 sensible-utils all 0.0.25 [25.0 kB] Get: 2 http://deb.debian.org/debian trixie/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Get: 3 http://deb.debian.org/debian trixie/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Get: 4 http://deb.debian.org/debian trixie/main arm64 file arm64 1:5.46-5 [43.7 kB] Get: 5 http://deb.debian.org/debian trixie/main arm64 gettext-base arm64 0.23.1-2 [241 kB] Get: 6 http://deb.debian.org/debian trixie/main arm64 libuchardet0 arm64 0.0.8-1+b2 [69.2 kB] Get: 7 http://deb.debian.org/debian trixie/main arm64 groff-base arm64 1.23.0-9 [1130 kB] Get: 8 http://deb.debian.org/debian trixie/main arm64 bsdextrautils arm64 2.41-5 [93.8 kB] Get: 9 http://deb.debian.org/debian trixie/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 10 http://deb.debian.org/debian trixie/main arm64 man-db arm64 2.13.1-1 [1453 kB] Get: 11 http://deb.debian.org/debian trixie/main arm64 m4 arm64 1.4.19-8 [285 kB] Get: 12 http://deb.debian.org/debian trixie/main arm64 autoconf all 2.72-3.1 [494 kB] Get: 13 http://deb.debian.org/debian trixie/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get: 14 http://deb.debian.org/debian trixie/main arm64 automake all 1:1.17-4 [862 kB] Get: 15 http://deb.debian.org/debian trixie/main arm64 autopoint all 0.23.1-2 [770 kB] Get: 16 http://deb.debian.org/debian trixie/main arm64 clustalw arm64 2.1+lgpl-7+b2 [256 kB] Get: 17 http://deb.debian.org/debian trixie/main arm64 libdebhelper-perl all 13.24.2 [90.9 kB] Get: 18 http://deb.debian.org/debian trixie/main arm64 libtool all 2.5.4-4 [539 kB] Get: 19 http://deb.debian.org/debian trixie/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 20 http://deb.debian.org/debian trixie/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 21 http://deb.debian.org/debian trixie/main arm64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 22 http://deb.debian.org/debian trixie/main arm64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 23 http://deb.debian.org/debian trixie/main arm64 libelf1t64 arm64 0.192-4 [189 kB] Get: 24 http://deb.debian.org/debian trixie/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 25 http://deb.debian.org/debian trixie/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get: 26 http://deb.debian.org/debian trixie/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-2.1 [630 kB] Get: 27 http://deb.debian.org/debian trixie/main arm64 gettext arm64 0.23.1-2 [1611 kB] Get: 28 http://deb.debian.org/debian trixie/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 29 http://deb.debian.org/debian trixie/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 30 http://deb.debian.org/debian trixie/main arm64 debhelper all 13.24.2 [919 kB] Get: 31 http://deb.debian.org/debian trixie/main arm64 libio-string-perl all 1.08-4 [12.1 kB] Get: 32 http://deb.debian.org/debian trixie/main arm64 libdata-stag-perl all 0.14-3 [448 kB] Get: 33 http://deb.debian.org/debian trixie/main arm64 libbio-perl-perl all 1.7.8-1 [2603 kB] Get: 34 http://deb.debian.org/debian trixie/main arm64 libio-pty-perl arm64 1:1.20-1+b3 [34.0 kB] Get: 35 http://deb.debian.org/debian trixie/main arm64 libipc-run-perl all 20231003.0-2 [101 kB] Get: 36 http://deb.debian.org/debian trixie/main arm64 libfile-sort-perl all 1.01-3 [21.3 kB] Get: 37 http://deb.debian.org/debian trixie/main arm64 libbio-perl-run-perl all 1.7.3-13 [528 kB] Get: 38 http://deb.debian.org/debian trixie/main arm64 libdevel-checkbin-perl all 0.04-3 [5228 B] Get: 39 http://deb.debian.org/debian trixie/main arm64 libsub-uplevel-perl all 0.2800-3 [14.0 kB] Get: 40 http://deb.debian.org/debian trixie/main arm64 libtest-exception-perl all 0.43-3 [16.9 kB] Get: 41 http://deb.debian.org/debian trixie/main arm64 t-coffee arm64 13.45.0.4846264+really13.41.0.28bdc39+dfsg-1+b1 [937 kB] Fetched 15.9 MB in 0s (70.0 MB/s) Preconfiguring packages ... Selecting previously unselected package sensible-utils. (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 ... 19965 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.25_all.deb ... Unpacking sensible-utils (0.0.25) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.46-5_arm64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../02-libmagic1t64_1%3a5.46-5_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.46-5) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.46-5_arm64.deb ... Unpacking file (1:5.46-5) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.23.1-2_arm64.deb ... Unpacking gettext-base (0.23.1-2) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../05-libuchardet0_0.0.8-1+b2_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-9_arm64.deb ... Unpacking groff-base (1.23.0-9) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.41-5_arm64.deb ... Unpacking bsdextrautils (2.41-5) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../08-libpipeline1_1.5.8-1_arm64.deb ... 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Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/libbio-tools-run-alignment-tcoffee-perl-1.7.4/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../libbio-tools-run-alignment-tcoffee-perl_1.7.4-3_source.changes dpkg-buildpackage: info: source package libbio-tools-run-alignment-tcoffee-perl dpkg-buildpackage: info: source version 1.7.4-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Jelmer Vernooij dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure /usr/bin/perl Makefile.PL INSTALLDIRS=vendor "OPTIMIZE=-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libbio-tools-run-alignment-tcoffee-perl-1.7.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2" "LD=aarch64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libbio-tools-run-alignment-tcoffee-perl-1.7.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wl,-z,relro" Locating bin:t_coffee... found at /usr/bin/t_coffee. Checking if your kit is complete... Looks good Generating a Unix-style Makefile Writing Makefile for Bio::Tools::Run::Alignment::TCoffee Writing MYMETA.yml and MYMETA.json dh_auto_build make -j12 make[1]: Entering directory '/build/reproducible-path/libbio-tools-run-alignment-tcoffee-perl-1.7.4' cp lib/Bio/Tools/Run/Alignment/TCoffee.pm blib/lib/Bio/Tools/Run/Alignment/TCoffee.pm Manifying 1 pod document make[1]: Leaving directory '/build/reproducible-path/libbio-tools-run-alignment-tcoffee-perl-1.7.4' dh_auto_test make -j12 test TEST_VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/libbio-tools-run-alignment-tcoffee-perl-1.7.4' PERL_DL_NONLAZY=1 "/usr/bin/perl" "-MExtUtils::Command::MM" "-MTest::Harness" "-e" "undef *Test::Harness::Switches; test_harness(1, 'blib/lib', 'blib/arch')" t/*.t t/00-compile.t ........... 1..1 ok 1 - Bio/Tools/Run/Alignment/TCoffee.pm loaded ok ok t/author-eol.t ........... skipped: these tests are for testing by the author t/author-mojibake.t ...... skipped: these tests are for testing by the author t/author-no-tabs.t ....... skipped: these tests are for testing by the author t/author-pod-coverage.t .. skipped: these tests are for testing by the author t/author-pod-syntax.t .... skipped: these tests are for testing by the author ! 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[Final Evaluation][TOT= 397][100 %] t/TCoffee.t .............. ok 1 - An object of class 'Bio::Tools::Run::Alignment::TCoffee' isa 'Bio::Tools::Run::Alignment::TCoffee' ok 2 - set factory parameter ok 3 - get factory parameter ok 4 - Code tested only on t_coffee versions > 1.22 #Single Thread ok 5 ok 6 #Single Thread ok 7 #Single Thread #Single Thread #Single Thread #Single Thread #Single Thread ok 8 ok 9 - no T-COFFEE errors ok 10 ok 11 ok 12 #Single Thread #Single Thread ok 13 ok 14 ok 15 #Single Thread #Single Thread ok 16 ok 17 - expect 21 >= val >= 23 ok 18 - expect 47 or 48 #Single Thread ok 19 - simple generic run ok 20 #Single Thread #Single Thread #Single Thread #Single Thread #Single Thread ok 21 ok 22 - no T-COFFEE errors ok 23 ok 24 - expect 13 or 14 ok 25 - expect 41 or 42 1..25 rmdir /tmp/bF_xMNAZ5S ok All tests successful. Files=7, Tests=26, 24 wallclock secs ( 0.04 usr 0.01 sys + 4.39 cusr 4.88 csys = 9.32 CPU) Result: PASS make[1]: Leaving directory '/build/reproducible-path/libbio-tools-run-alignment-tcoffee-perl-1.7.4' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/libbio-tools-run-alignment-tcoffee-perl/ make -j12 install DESTDIR=/build/reproducible-path/libbio-tools-run-alignment-tcoffee-perl-1.7.4/debian/libbio-tools-run-alignment-tcoffee-perl AM_UPDATE_INFO_DIR=no PREFIX=/usr make[1]: Entering directory '/build/reproducible-path/libbio-tools-run-alignment-tcoffee-perl-1.7.4' Manifying 1 pod document Installing /build/reproducible-path/libbio-tools-run-alignment-tcoffee-perl-1.7.4/debian/libbio-tools-run-alignment-tcoffee-perl/usr/share/perl5/Bio/Tools/Run/Alignment/TCoffee.pm Installing /build/reproducible-path/libbio-tools-run-alignment-tcoffee-perl-1.7.4/debian/libbio-tools-run-alignment-tcoffee-perl/usr/share/man/man3/Bio::Tools::Run::Alignment::TCoffee.3pm make[1]: Leaving directory '/build/reproducible-path/libbio-tools-run-alignment-tcoffee-perl-1.7.4' dh_installdocs dh_installchangelogs dh_installman dh_lintian dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'libbio-tools-run-alignment-tcoffee-perl' in '../libbio-tools-run-alignment-tcoffee-perl_1.7.4-3_all.deb'. dpkg-genbuildinfo --build=binary -O../libbio-tools-run-alignment-tcoffee-perl_1.7.4-3_arm64.buildinfo dpkg-genchanges --build=binary -O../libbio-tools-run-alignment-tcoffee-perl_1.7.4-3_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/2214685 and its subdirectories I: Current time: Wed Sep 9 18:32:05 -12 2026 I: pbuilder-time-stamp: 1789021925 Fri Aug 8 00:09:07 UTC 2025 I: 1st build successful. Starting 2nd build on remote node codethink04-arm64.debian.net. Fri Aug 8 00:09:07 UTC 2025 I: Preparing to do remote build '2' on codethink04-arm64.debian.net. Fri Aug 8 00:10:02 UTC 2025 I: Deleting $TMPDIR on codethink04-arm64.debian.net. Fri Aug 8 00:10:02 UTC 2025 I: libbio-tools-run-alignment-tcoffee-perl_1.7.4-3_arm64.changes: Format: 1.8 Date: Fri, 14 Oct 2022 16:06:32 +0100 Source: libbio-tools-run-alignment-tcoffee-perl Binary: libbio-tools-run-alignment-tcoffee-perl Architecture: all Version: 1.7.4-3 Distribution: unstable Urgency: medium Maintainer: Debian Perl Group Changed-By: Jelmer Vernooij Description: libbio-tools-run-alignment-tcoffee-perl - Bioperl interface to T-Coffee Changes: libbio-tools-run-alignment-tcoffee-perl (1.7.4-3) unstable; urgency=medium . [ Debian Janitor ] * Remove constraints unnecessary since buster * Update standards version to 4.6.0, no changes needed. Checksums-Sha1: a0954a3f8e15b3729f9744dc8b4bf478eadae987 23072 libbio-tools-run-alignment-tcoffee-perl_1.7.4-3_all.deb 0b61a579fe3eb2907c0eafc477d1c1794fc5b1a3 5177 libbio-tools-run-alignment-tcoffee-perl_1.7.4-3_arm64.buildinfo Checksums-Sha256: 2e29cae32a146ec9bbbb7d263543a9c6855574b30a6cf1309db55d8d3e3898eb 23072 libbio-tools-run-alignment-tcoffee-perl_1.7.4-3_all.deb 4026f1631ce68a77b520be5bff4c2f8c8683ca2f138bd1e5b375adf5e93f2fba 5177 libbio-tools-run-alignment-tcoffee-perl_1.7.4-3_arm64.buildinfo Files: 0c4166f737df61d96b3cf6e007f38fbc 23072 science optional libbio-tools-run-alignment-tcoffee-perl_1.7.4-3_all.deb 7bbf01bf555aecf6a177cd277bcef4d4 5177 science optional libbio-tools-run-alignment-tcoffee-perl_1.7.4-3_arm64.buildinfo Fri Aug 8 00:10:03 UTC 2025 I: diffoscope 303 will be used to compare the two builds: Running as unit: rb-diffoscope-arm64_3-108974.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.TgDpOUBT/libbio-tools-run-alignment-tcoffee-perl_1.7.4-3.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.TgDpOUBT/libbio-tools-run-alignment-tcoffee-perl_1.7.4-3.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.TgDpOUBT/libbio-tools-run-alignment-tcoffee-perl_1.7.4-3.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.TgDpOUBT/b1/libbio-tools-run-alignment-tcoffee-perl_1.7.4-3_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.TgDpOUBT/b2/libbio-tools-run-alignment-tcoffee-perl_1.7.4-3_arm64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call diffoscope.comparators.binary.FilesystemFile ## main (total time: 0.003s) 0.003s 2 calls outputs 0.000s 1 call cleanup Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 173ms CPU time consumed: 175ms Fri Aug 8 00:10:04 UTC 2025 I: diffoscope 303 found no differences in the changes files, and a .buildinfo file also exists. Fri Aug 8 00:10:04 UTC 2025 I: libbio-tools-run-alignment-tcoffee-perl from trixie built successfully and reproducibly on arm64. Fri Aug 8 00:10:04 UTC 2025 I: Removing signed libbio-tools-run-alignment-tcoffee-perl_1.7.4-3_arm64.buildinfo.asc files: removed './b1/libbio-tools-run-alignment-tcoffee-perl_1.7.4-3_arm64.buildinfo.asc' removed './b2/libbio-tools-run-alignment-tcoffee-perl_1.7.4-3_arm64.buildinfo.asc'