Running as unit: rb-build-amd64_2-32666.service ==================================================================================== Sun Feb 23 01:04:31 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job reproducible_builder_amd64_2) on jenkins, called using "ionos5-amd64 ionos1-amd64" as arguments. Sun Feb 23 01:04:31 UTC 2025 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-X7pjS5JU" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Sun Feb 23 01:04:31 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos5-amd64.debian.net is marked as down. Sun Feb 23 01:04:31 UTC 2025 - checking via ssh if ionos5-amd64.debian.net is up. removed '/tmp/read-only-fs-test-NbLEuE' Sun Feb 23 01:04:31 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos1-amd64.debian.net is marked as down. Sun Feb 23 01:04:31 UTC 2025 - checking via ssh if ionos1-amd64.debian.net is up. removed '/tmp/read-only-fs-test-0sCOMJ' ok, let's check if libbio-alignio-stockholm-perl is building anywhere yet… ok, libbio-alignio-stockholm-perl is not building anywhere… UPDATE 1 ============================================================================= Initialising reproducibly build of libbio-alignio-stockholm-perl in unstable on amd64 on jenkins now. 1st build will be done on ionos5-amd64.debian.net. 2nd build will be done on ionos1-amd64.debian.net. ============================================================================= Sun Feb 23 01:04:39 UTC 2025 I: starting to build libbio-alignio-stockholm-perl/unstable/amd64 on jenkins on '2025-02-23 01:04' Sun Feb 23 01:04:39 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_2/32666/console.log 1740272679 amd64 unstable libbio-alignio-stockholm-perl Sun Feb 23 01:04:39 UTC 2025 I: Downloading source for unstable/libbio-alignio-stockholm-perl=1.7.3-2 --2025-02-23 01:04:39-- http://deb.debian.org/debian/pool/main/libb/libbio-alignio-stockholm-perl/libbio-alignio-stockholm-perl_1.7.3-2.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2284 (2.2K) [text/prs.lines.tag] Saving to: ‘libbio-alignio-stockholm-perl_1.7.3-2.dsc’ 0K .. 100% 160M=0s 2025-02-23 01:04:39 (160 MB/s) - ‘libbio-alignio-stockholm-perl_1.7.3-2.dsc’ saved [2284/2284] --2025-02-23 01:04:39-- http://deb.debian.org/debian/pool/main/libb/libbio-alignio-stockholm-perl/libbio-alignio-stockholm-perl_1.7.3-2.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2284 (2.2K) [text/prs.lines.tag] Saving to: ‘libbio-alignio-stockholm-perl_1.7.3-2.dsc’ 0K .. 100% 160M=0s 2025-02-23 01:04:39 (160 MB/s) - ‘libbio-alignio-stockholm-perl_1.7.3-2.dsc’ saved [2284/2284] Sun Feb 23 01:04:39 UTC 2025 I: libbio-alignio-stockholm-perl_1.7.3-2.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: libbio-alignio-stockholm-perl Binary: libbio-alignio-stockholm-perl Architecture: all Version: 1.7.3-2 Maintainer: Debian Med Packaging Team Uploaders: Michael R. Crusoe Homepage: https://metacpan.org/release/Bio-AlignIO-stockholm Standards-Version: 4.5.0 Vcs-Browser: https://salsa.debian.org/med-team/libbio-alignio-stockholm-perl Vcs-Git: https://salsa.debian.org/med-team/libbio-alignio-stockholm-perl.git Testsuite: autopkgtest-pkg-perl Build-Depends: debhelper-compat (= 12), libbio-perl-perl, libtest-most-perl Build-Depends-Indep: perl Package-List: libbio-alignio-stockholm-perl deb perl optional arch=all Checksums-Sha1: 89ca9fbb76d58140f42d80776efbdce958454baa 37596 libbio-alignio-stockholm-perl_1.7.3.orig.tar.gz 9b80b333ca155afb28773df1dab39eec5da38f0d 1780 libbio-alignio-stockholm-perl_1.7.3-2.debian.tar.xz Checksums-Sha256: c2699f42341902bb1db2407708141d589d7b40cac4531879d7744147c35500e2 37596 libbio-alignio-stockholm-perl_1.7.3.orig.tar.gz f6f3683dc8b27bda0ecfe5cd4ce65bc01911798ed54e29a167fa7928d43cafe8 1780 libbio-alignio-stockholm-perl_1.7.3-2.debian.tar.xz Files: 47361a5c56b1efc8be723c76c342ea0d 37596 libbio-alignio-stockholm-perl_1.7.3.orig.tar.gz 6b5bada7af9da7f04f9c73591dcef594 1780 libbio-alignio-stockholm-perl_1.7.3-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAl5eD04RHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtGN4xAAmF4QkmTG8izvJqmRL5YXJJTSQxuaR+IS 7NwjtQxTiDOj/Jf5nQ4hAMU5+dI55TNGvRd+Cf3j5JbQRBW7i1tvRzTLMOD/PlfD CUhboORX1kcOdQUdVuNeVxLKFBTvPps0ic0ABjhbGPQFyhdoe3yPmVIkNgOpxOZw Lb5GNtmUIl1EZdRUAum3gaScWacoflW1NjNnrMi8d2Uq3c1lDjG25pdvS1BVKsmD E7rcXzz/3p8SjcpX5kEOPHZKTfE23/QmqGmOvg3tZt2DJ40ig/JHOVipCOG1c914 q4e8piis10pS+n9gW3cXoOqdRsYuXXUjHiMml94EO9jOnQh+DunBoHp+bwuFfeIN Xcv98Qmqx/10U/WXJ04mJFT4zkAV4s7WIqRBu6xUGEEAcVL4+WX4hLvkgs1xOs1n je6IP3o7B90sbhd84v3nSlnliMoNfJP3ANDgWmIwpLTBQvWRjJ50o/QZyxoGW3Rt 1qynAQXdQ6oGC6o+vQKChZM0LS4rGhwbwoLFabfoDAQdN5AjOL8Yqps7DZJIFkMz RttwU5fANbUKWXO9sJ8LKMhwHfta0+6LYveGR4BfKJKkSKiyfu14CPLLU8EUhL/b vwzoFLSN3OIkLW6XWyWPYdyPpziwWRMPmw6iKUTXq3NqEgCM7wMJjJBNvb+UI5jC kj0G9yUG5jE= =VF0H -----END PGP SIGNATURE----- Sun Feb 23 01:04:39 UTC 2025 I: Checking whether the package is not for us Sun Feb 23 01:04:39 UTC 2025 I: Starting 1st build on remote node ionos5-amd64.debian.net. Sun Feb 23 01:04:39 UTC 2025 I: Preparing to do remote build '1' on ionos5-amd64.debian.net. Sun Feb 23 01:04:39 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos5-amd64.debian.net is marked as down. Sun Feb 23 01:04:39 UTC 2025 - checking via ssh if ionos5-amd64.debian.net is up. removed '/tmp/read-only-fs-test-MMU3SC' ==================================================================================== Sat Mar 28 07:27:40 UTC 2026 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on ionos5-amd64, called using "1 libbio-alignio-stockholm-perl unstable /srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z 1.7.3-2" as arguments. Sat Mar 28 07:27:40 UTC 2026 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-3EoAmWEh" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Sat Mar 28 07:27:40 UTC 2026 I: Downloading source for unstable/libbio-alignio-stockholm-perl=1.7.3-2 Reading package lists... NOTICE: 'libbio-alignio-stockholm-perl' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/libbio-alignio-stockholm-perl.git Please use: git clone https://salsa.debian.org/med-team/libbio-alignio-stockholm-perl.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 41.7 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main libbio-alignio-stockholm-perl 1.7.3-2 (dsc) [2284 B] Get:2 http://deb.debian.org/debian unstable/main libbio-alignio-stockholm-perl 1.7.3-2 (tar) [37.6 kB] Get:3 http://deb.debian.org/debian unstable/main libbio-alignio-stockholm-perl 1.7.3-2 (diff) [1780 B] Fetched 41.7 kB in 0s (586 kB/s) Download complete and in download only mode Reading package lists... NOTICE: 'libbio-alignio-stockholm-perl' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/libbio-alignio-stockholm-perl.git Please use: git clone https://salsa.debian.org/med-team/libbio-alignio-stockholm-perl.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 41.7 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main libbio-alignio-stockholm-perl 1.7.3-2 (dsc) [2284 B] Get:2 http://deb.debian.org/debian unstable/main libbio-alignio-stockholm-perl 1.7.3-2 (tar) [37.6 kB] Get:3 http://deb.debian.org/debian unstable/main libbio-alignio-stockholm-perl 1.7.3-2 (diff) [1780 B] Fetched 41.7 kB in 0s (586 kB/s) Download complete and in download only mode ============================================================================= Building libbio-alignio-stockholm-perl in unstable on amd64 on ionos5-amd64 now. Date: Sat Mar 28 07:27:40 UTC 2026 Date UTC: Sat Mar 28 07:27:40 UTC 2026 ============================================================================= W: /root/.pbuilderrc does not exist I: Logging to b1/build.log I: pbuilder: network access will be disabled during build I: Current time: Fri Mar 27 19:27:41 -12 2026 I: pbuilder-time-stamp: 1774682861 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-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-alignio-stockholm-perl_1.7.3-2.dsc] I: copying [./libbio-alignio-stockholm-perl_1.7.3.orig.tar.gz] I: copying [./libbio-alignio-stockholm-perl_1.7.3-2.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./libbio-alignio-stockholm-perl_1.7.3-2.dsc: unsupported subcommand dpkg-source: info: extracting libbio-alignio-stockholm-perl in libbio-alignio-stockholm-perl-1.7.3 dpkg-source: info: unpacking libbio-alignio-stockholm-perl_1.7.3.orig.tar.gz dpkg-source: info: unpacking libbio-alignio-stockholm-perl_1.7.3-2.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3479509/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='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='160015882a5142e19178d082759c360a' 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='3479509' 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.ZL3BrB4z/pbuilderrc_B0NV --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z/b1 --logfile b1/build.log libbio-alignio-stockholm-perl_1.7.3-2.dsc' SUDO_GID='110' SUDO_UID='105' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://213.165.73.152:3128' I: uname -a Linux ionos5-amd64 6.12.9+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.9-1~bpo12+1 (2025-01-19) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin I: user script /srv/workspace/pbuilder/3479509/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: amd64 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 (= 12), libbio-perl-perl, libtest-most-perl, perl dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19775 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 (= 12); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on libbio-perl-perl; however: Package libbio-perl-perl is not installed. pbuilder-satisfydepends-dummy depends on libtest-most-perl; however: Package libtest-most-perl 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} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libalgorithm-diff-perl{a} libarchive-zip-perl{a} libbio-perl-perl{a} libcapture-tiny-perl{a} libclass-data-inheritable-perl{a} libdata-stag-perl{a} libdebhelper-perl{a} libdevel-stacktrace-perl{a} libelf1t64{a} libexception-class-perl{a} libfile-stripnondeterminism-perl{a} libicu72{a} libio-string-perl{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libsub-uplevel-perl{a} libtest-deep-perl{a} libtest-differences-perl{a} libtest-exception-perl{a} libtest-most-perl{a} libtest-warn-perl{a} libtext-diff-perl{a} libtool{a} libuchardet0{a} libunistring5{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: bioperl-run curl libace-perl libalgorithm-diff-xs-perl libalgorithm-munkres-perl libarchive-cpio-perl libarray-compare-perl libbio-asn1-entrezgene-perl libbio-perl-run-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 perl-tk wget 0 packages upgraded, 45 newly installed, 0 to remove and 0 not upgraded. Need to get 23.9 MB of archives. After unpacking 88.3 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.23.1-1 [243 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-7 [1185 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.4-4 [92.4 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-5 [294 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3 [493 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.17-3 [862 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.23.1-1 [770 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.24.1 [90.9 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 libtool all 2.5.4-3 [539 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 22 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 libunistring5 amd64 1.3-1 [476 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-6 [9421 kB] Get: 26 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [699 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.23.1-1 [1680 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 30 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.24.1 [920 kB] Get: 31 http://deb.debian.org/debian unstable/main amd64 libalgorithm-diff-perl all 1.201-1 [43.3 kB] Get: 32 http://deb.debian.org/debian unstable/main amd64 libio-string-perl all 1.08-4 [12.1 kB] Get: 33 http://deb.debian.org/debian unstable/main amd64 libdata-stag-perl all 0.14-3 [448 kB] Get: 34 http://deb.debian.org/debian unstable/main amd64 libbio-perl-perl all 1.7.8-1 [2603 kB] Get: 35 http://deb.debian.org/debian unstable/main amd64 libcapture-tiny-perl all 0.50-1 [24.6 kB] Get: 36 http://deb.debian.org/debian unstable/main amd64 libclass-data-inheritable-perl all 0.10-1 [8632 B] Get: 37 http://deb.debian.org/debian unstable/main amd64 libdevel-stacktrace-perl all 2.0500-1 [26.4 kB] Get: 38 http://deb.debian.org/debian unstable/main amd64 libexception-class-perl all 1.45-1 [34.6 kB] Get: 39 http://deb.debian.org/debian unstable/main amd64 libsub-uplevel-perl all 0.2800-3 [14.0 kB] Get: 40 http://deb.debian.org/debian unstable/main amd64 libtest-deep-perl all 1.204-1 [52.9 kB] Get: 41 http://deb.debian.org/debian unstable/main amd64 libtext-diff-perl all 1.45-2 [27.2 kB] Get: 42 http://deb.debian.org/debian unstable/main amd64 libtest-differences-perl all 0.71-1 [17.9 kB] Get: 43 http://deb.debian.org/debian unstable/main amd64 libtest-exception-perl all 0.43-3 [16.9 kB] Get: 44 http://deb.debian.org/debian unstable/main amd64 libtest-warn-perl all 0.37-2 [14.5 kB] Get: 45 http://deb.debian.org/debian unstable/main amd64 libtest-most-perl all 0.38-1 [25.1 kB] Fetched 23.9 MB in 11s (2204 kB/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 ... 19775 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3+b1_amd64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.23.1-1_amd64.deb ... Unpacking gettext-base (0.23.1-1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../05-libuchardet0_0.0.8-1+b2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-7_amd64.deb ... Unpacking groff-base (1.23.0-7) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.40.4-4_amd64.deb ... Unpacking bsdextrautils (2.40.4-4) ... Selecting previously unselected package libpipeline1:amd64. 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Setting up libcapture-tiny-perl (0.50-1) ... Setting up dwz (0.15-1+b1) ... Setting up libdata-stag-perl (0.14-3) ... Setting up sensible-utils (0.0.24) ... Setting up libuchardet0:amd64 (0.0.8-1+b2) ... Setting up libsub-uplevel-perl (0.2800-3) ... Setting up libdevel-stacktrace-perl (2.0500-1) ... Setting up libbio-perl-perl (1.7.8-1) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up automake (1:1.17-3) ... update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.1-2) ... Setting up gettext (0.23.1-1) ... Setting up libtool (2.5.4-3) ... Setting up libtest-warn-perl (0.37-2) ... Setting up libtest-differences-perl (0.71-1) ... Setting up libexception-class-perl (1.45-1) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libtest-exception-perl (0.43-3) ... Setting up dh-strip-nondeterminism (1.14.1-2) ... Setting up groff-base (1.23.0-7) ... Setting up libtest-most-perl (0.38-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.24.1) ... Processing triggers for libc-bin (2.40-7) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3/ && 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-alignio-stockholm-perl_1.7.3-2_source.changes dpkg-buildpackage: info: source package libbio-alignio-stockholm-perl dpkg-buildpackage: info: source version 1.7.3-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 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-alignio-stockholm-perl-1.7.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2" "LD=x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wl,-z,relro" Checking if your kit is complete... Looks good Generating a Unix-style Makefile Writing Makefile for Bio::AlignIO::stockholm Writing MYMETA.yml and MYMETA.json dh_auto_build make -j42 make[1]: Entering directory '/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3' cp lib/Bio/Index/Stockholm.pm blib/lib/Bio/Index/Stockholm.pm cp lib/Bio/AlignIO/stockholm.pm blib/lib/Bio/AlignIO/stockholm.pm Manifying 2 pod documents make[1]: Leaving directory '/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3' dh_auto_test make -j42 test TEST_VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3' 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..2 ok 1 - Bio/AlignIO/stockholm.pm loaded ok ok 2 - Bio/Index/Stockholm.pm loaded ok ok t/AlignIO.t .............. 1..87 ok 1 - use Bio::AlignIO::stockholm; ok 2 - An object of class 'Bio::AlignIO::stockholm' isa 'Bio::AlignIO' ok 3 - An object of class 'Bio::SimpleAlign' isa 'Bio::Align::AlignI' ok 4 ok 5 ok 6 ok 7 ok 8 ok 9 - An object of class 'Bio::Annotation::Comment' isa 'Bio::Annotation::Comment' ok 10 - Stockholm annotation ok 11 - Stockholm annotation ok 12 - stockholm output test ok 13 - An object of class 'Bio::SimpleAlign' isa 'Bio::Align::AlignI' ok 14 ok 15 ok 16 ok 17 ok 18 ok 19 ok 20 - 'Stockholm annotation' isa 'Bio::Annotation::Reference' ok 21 - Stockholm annotation ok 22 - Stockholm annotation ok 23 - Stockholm annotation ok 24 - Stockholm annotation ok 25 - An object of class 'Bio::Seq::Meta' isa 'Bio::Seq::MetaI' ok 26 - Rfam meta data ok 27 - Rfam meta data ok 28 ok 29 - An object of class 'Bio::SimpleAlign' isa 'Bio::Align::AlignI' ok 30 ok 31 ok 32 ok 33 ok 34 ok 35 - An object of class 'Bio::Seq::Meta' isa 'Bio::Seq::MetaI' ok 36 - Rfam meta data ok 37 - Rfam meta data ok 38 - An object of class 'Bio::AlignIO::stockholm' isa 'Bio::AlignIO' ok 39 ok 40 - An object of class 'Bio::SimpleAlign' isa 'Bio::Align::AlignI' ok 41 ok 42 ok 43 ok 44 ok 45 - An object of class 'Bio::Annotation::SimpleValue' isa 'Bio::Annotation::SimpleValue' ok 46 - Pfam annotation ok 47 ok 48 - An object of class 'Bio::SimpleAlign' isa 'Bio::Align::AlignI' ok 49 ok 50 ok 51 ok 52 ok 53 - An object of class 'Bio::SimpleAlign' isa 'Bio::Align::AlignI' ok 54 ok 55 ok 56 ok 57 ok 58 ok 59 - An object of class 'Bio::Seq::Meta' isa 'Bio::Seq::MetaI' ok 60 - Pfam aln meta data ok 61 - Pfam aln meta data ok 62 - Pfam aln meta data ok 63 - Pfam aln meta data ok 64 - Pfam aln meta data ok 65 - Pfam aln meta data ok 66 - Pfam seq meta data ok 67 - Pfam seq meta data ok 68 - Pfam seq meta data ok 69 - Pfam seq meta data ok 70 ok 71 - An object of class 'Bio::SeqFeature::Generic' isa 'Bio::SeqFeatureI' ok 72 - An object of class 'Bio::Seq::Meta' isa 'Bio::Seq::Meta' ok 73 - An object of class 'Bio::Annotation::Target' isa 'Bio::AnnotationI' ok 74 - An object of class 'Bio::Annotation::Target' isa 'Bio::Annotation::DBLink' 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 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-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 t/Index.t ................ 1..4 ok 1 - use Bio::Index::Stockholm; ok 2 - An object of class 'Bio::Index::Stockholm' isa 'Bio::Index::Stockholm' ok 3 ok 4 - An object of class 'Bio::SimpleAlign' isa 'Bio::SimpleAlign' ok All tests successful. Files=7, Tests=93, 1 wallclock secs ( 0.03 usr 0.02 sys + 0.61 cusr 0.09 csys = 0.75 CPU) Result: PASS make[1]: Leaving directory '/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/libbio-alignio-stockholm-perl/ make -j42 install DESTDIR=/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3/debian/libbio-alignio-stockholm-perl AM_UPDATE_INFO_DIR=no PREFIX=/usr make[1]: Entering directory '/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3' Manifying 2 pod documents Installing /build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3/debian/libbio-alignio-stockholm-perl/usr/share/perl5/Bio/AlignIO/stockholm.pm Installing /build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3/debian/libbio-alignio-stockholm-perl/usr/share/perl5/Bio/Index/Stockholm.pm Installing /build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3/debian/libbio-alignio-stockholm-perl/usr/share/man/man3/Bio::Index::Stockholm.3pm Installing /build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3/debian/libbio-alignio-stockholm-perl/usr/share/man/man3/Bio::AlignIO::stockholm.3pm make[1]: Leaving directory '/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3' dh_installdocs dh_installchangelogs dh_installman 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-alignio-stockholm-perl' in '../libbio-alignio-stockholm-perl_1.7.3-2_all.deb'. dpkg-genbuildinfo --build=binary -O../libbio-alignio-stockholm-perl_1.7.3-2_amd64.buildinfo dpkg-genchanges --build=binary -O../libbio-alignio-stockholm-perl_1.7.3-2_amd64.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/3479509 and its subdirectories I: Current time: Fri Mar 27 19:29:15 -12 2026 I: pbuilder-time-stamp: 1774682955 Sat Mar 28 07:29:15 UTC 2026 I: Signing ./b1/libbio-alignio-stockholm-perl_1.7.3-2_amd64.buildinfo as libbio-alignio-stockholm-perl_1.7.3-2_amd64.buildinfo.asc Sat Mar 28 07:29:15 UTC 2026 I: Signed ./b1/libbio-alignio-stockholm-perl_1.7.3-2_amd64.buildinfo as ./b1/libbio-alignio-stockholm-perl_1.7.3-2_amd64.buildinfo.asc Sat Mar 28 07:29:15 UTC 2026 - build #1 for libbio-alignio-stockholm-perl/unstable/amd64 on ionos5-amd64 done. Starting cleanup. All cleanup done. Sat Mar 28 07:29:15 UTC 2026 - reproducible_build.sh stopped running as /tmp/jenkins-script-3EoAmWEh, removing. /srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z: total 16 drwxr-xr-x 2 jenkins jenkins 4096 Feb 23 01:06 b1 drwxr-xr-x 2 jenkins jenkins 4096 Feb 23 01:04 b2 -rw-r--r-- 1 jenkins jenkins 2284 Mar 3 2020 libbio-alignio-stockholm-perl_1.7.3-2.dsc -rw------- 1 jenkins jenkins 3540 Feb 23 01:04 rbuildlog.djkcnRn /srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z/b1: total 88 -rw-r--r-- 1 jenkins jenkins 29258 Feb 23 01:06 build.log -rw-r--r-- 1 jenkins jenkins 1780 Feb 23 01:06 libbio-alignio-stockholm-perl_1.7.3-2.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2284 Feb 23 01:06 libbio-alignio-stockholm-perl_1.7.3-2.dsc -rw-r--r-- 1 jenkins jenkins 22532 Feb 23 01:06 libbio-alignio-stockholm-perl_1.7.3-2_all.deb -rw-r--r-- 1 jenkins jenkins 5230 Feb 23 01:06 libbio-alignio-stockholm-perl_1.7.3-2_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 6112 Feb 23 01:06 libbio-alignio-stockholm-perl_1.7.3-2_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1335 Feb 23 01:06 libbio-alignio-stockholm-perl_1.7.3-2_amd64.changes -rw-r--r-- 1 jenkins jenkins 1527 Feb 23 01:06 libbio-alignio-stockholm-perl_1.7.3-2_source.changes /srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z/b2: total 0 Sun Feb 23 01:06:16 UTC 2025 I: Deleting $TMPDIR on ionos5-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Fri Mar 27 19:27:41 -12 2026 I: pbuilder-time-stamp: 1774682861 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-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-alignio-stockholm-perl_1.7.3-2.dsc] I: copying [./libbio-alignio-stockholm-perl_1.7.3.orig.tar.gz] I: copying [./libbio-alignio-stockholm-perl_1.7.3-2.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./libbio-alignio-stockholm-perl_1.7.3-2.dsc: unsupported subcommand dpkg-source: info: extracting libbio-alignio-stockholm-perl in libbio-alignio-stockholm-perl-1.7.3 dpkg-source: info: unpacking libbio-alignio-stockholm-perl_1.7.3.orig.tar.gz dpkg-source: info: unpacking libbio-alignio-stockholm-perl_1.7.3-2.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3479509/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='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='160015882a5142e19178d082759c360a' 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='3479509' 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.ZL3BrB4z/pbuilderrc_B0NV --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z/b1 --logfile b1/build.log libbio-alignio-stockholm-perl_1.7.3-2.dsc' SUDO_GID='110' SUDO_UID='105' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://213.165.73.152:3128' I: uname -a Linux ionos5-amd64 6.12.9+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.9-1~bpo12+1 (2025-01-19) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin I: user script /srv/workspace/pbuilder/3479509/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: amd64 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 (= 12), libbio-perl-perl, libtest-most-perl, perl dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19775 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 (= 12); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on libbio-perl-perl; however: Package libbio-perl-perl is not installed. pbuilder-satisfydepends-dummy depends on libtest-most-perl; however: Package libtest-most-perl 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} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libalgorithm-diff-perl{a} libarchive-zip-perl{a} libbio-perl-perl{a} libcapture-tiny-perl{a} libclass-data-inheritable-perl{a} libdata-stag-perl{a} libdebhelper-perl{a} libdevel-stacktrace-perl{a} libelf1t64{a} libexception-class-perl{a} libfile-stripnondeterminism-perl{a} libicu72{a} libio-string-perl{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libsub-uplevel-perl{a} libtest-deep-perl{a} libtest-differences-perl{a} libtest-exception-perl{a} libtest-most-perl{a} libtest-warn-perl{a} libtext-diff-perl{a} libtool{a} libuchardet0{a} libunistring5{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: bioperl-run curl libace-perl libalgorithm-diff-xs-perl libalgorithm-munkres-perl libarchive-cpio-perl libarray-compare-perl libbio-asn1-entrezgene-perl libbio-perl-run-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 perl-tk wget 0 packages upgraded, 45 newly installed, 0 to remove and 0 not upgraded. Need to get 23.9 MB of archives. After unpacking 88.3 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.23.1-1 [243 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-7 [1185 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.4-4 [92.4 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-5 [294 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3 [493 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.17-3 [862 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.23.1-1 [770 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.24.1 [90.9 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 libtool all 2.5.4-3 [539 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 22 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 libunistring5 amd64 1.3-1 [476 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-6 [9421 kB] Get: 26 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [699 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.23.1-1 [1680 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 30 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.24.1 [920 kB] Get: 31 http://deb.debian.org/debian unstable/main amd64 libalgorithm-diff-perl all 1.201-1 [43.3 kB] Get: 32 http://deb.debian.org/debian unstable/main amd64 libio-string-perl all 1.08-4 [12.1 kB] Get: 33 http://deb.debian.org/debian unstable/main amd64 libdata-stag-perl all 0.14-3 [448 kB] Get: 34 http://deb.debian.org/debian unstable/main amd64 libbio-perl-perl all 1.7.8-1 [2603 kB] Get: 35 http://deb.debian.org/debian unstable/main amd64 libcapture-tiny-perl all 0.50-1 [24.6 kB] Get: 36 http://deb.debian.org/debian unstable/main amd64 libclass-data-inheritable-perl all 0.10-1 [8632 B] Get: 37 http://deb.debian.org/debian unstable/main amd64 libdevel-stacktrace-perl all 2.0500-1 [26.4 kB] Get: 38 http://deb.debian.org/debian unstable/main amd64 libexception-class-perl all 1.45-1 [34.6 kB] Get: 39 http://deb.debian.org/debian unstable/main amd64 libsub-uplevel-perl all 0.2800-3 [14.0 kB] Get: 40 http://deb.debian.org/debian unstable/main amd64 libtest-deep-perl all 1.204-1 [52.9 kB] Get: 41 http://deb.debian.org/debian unstable/main amd64 libtext-diff-perl all 1.45-2 [27.2 kB] Get: 42 http://deb.debian.org/debian unstable/main amd64 libtest-differences-perl all 0.71-1 [17.9 kB] Get: 43 http://deb.debian.org/debian unstable/main amd64 libtest-exception-perl all 0.43-3 [16.9 kB] Get: 44 http://deb.debian.org/debian unstable/main amd64 libtest-warn-perl all 0.37-2 [14.5 kB] Get: 45 http://deb.debian.org/debian unstable/main amd64 libtest-most-perl all 0.38-1 [25.1 kB] Fetched 23.9 MB in 11s (2204 kB/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 ... 19775 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3+b1_amd64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.23.1-1_amd64.deb ... Unpacking gettext-base (0.23.1-1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../05-libuchardet0_0.0.8-1+b2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-7_amd64.deb ... Unpacking groff-base (1.23.0-7) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.40.4-4_amd64.deb ... Unpacking bsdextrautils (2.40.4-4) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../08-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.13.0-1_amd64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-5_amd64.deb ... Unpacking m4 (1.4.19-5) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../13-automake_1%3a1.17-3_all.deb ... Unpacking automake (1:1.17-3) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_0.23.1-1_all.deb ... Unpacking autopoint (0.23.1-1) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.24.1_all.deb ... Unpacking libdebhelper-perl (13.24.1) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.5.4-3_all.deb ... Unpacking libtool (2.5.4-3) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../17-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... 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_1.14.1-2_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.1-2) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../20-dh-strip-nondeterminism_1.14.1-2_all.deb ... Unpacking dh-strip-nondeterminism (1.14.1-2) ... Selecting previously unselected package libelf1t64:amd64. Preparing to unpack .../21-libelf1t64_0.192-4_amd64.deb ... Unpacking libelf1t64:amd64 (0.192-4) ... Selecting previously unselected package dwz. Preparing to unpack .../22-dwz_0.15-1+b1_amd64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libunistring5:amd64. Preparing to unpack .../23-libunistring5_1.3-1_amd64.deb ... Unpacking libunistring5:amd64 (1.3-1) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../24-libicu72_72.1-6_amd64.deb ... Unpacking libicu72:amd64 (72.1-6) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../25-libxml2_2.12.7+dfsg+really2.9.14-0.2+b1_amd64.deb ... Unpacking libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Selecting previously unselected package gettext. Preparing to unpack .../26-gettext_0.23.1-1_amd64.deb ... Unpacking gettext (0.23.1-1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../27-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 .../28-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../29-debhelper_13.24.1_all.deb ... Unpacking debhelper (13.24.1) ... Selecting previously unselected package libalgorithm-diff-perl. Preparing to unpack .../30-libalgorithm-diff-perl_1.201-1_all.deb ... Unpacking libalgorithm-diff-perl (1.201-1) ... Selecting previously unselected package libio-string-perl. Preparing to unpack .../31-libio-string-perl_1.08-4_all.deb ... Unpacking libio-string-perl (1.08-4) ... Selecting previously unselected package libdata-stag-perl. Preparing to unpack .../32-libdata-stag-perl_0.14-3_all.deb ... Unpacking libdata-stag-perl (0.14-3) ... 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Preparing to unpack .../38-libsub-uplevel-perl_0.2800-3_all.deb ... Unpacking libsub-uplevel-perl (0.2800-3) ... Selecting previously unselected package libtest-deep-perl. Preparing to unpack .../39-libtest-deep-perl_1.204-1_all.deb ... Unpacking libtest-deep-perl (1.204-1) ... Selecting previously unselected package libtext-diff-perl. Preparing to unpack .../40-libtext-diff-perl_1.45-2_all.deb ... Unpacking libtext-diff-perl (1.45-2) ... Selecting previously unselected package libtest-differences-perl. Preparing to unpack .../41-libtest-differences-perl_0.71-1_all.deb ... Unpacking libtest-differences-perl (0.71-1) ... Selecting previously unselected package libtest-exception-perl. Preparing to unpack .../42-libtest-exception-perl_0.43-3_all.deb ... Unpacking libtest-exception-perl (0.43-3) ... Selecting previously unselected package libtest-warn-perl. Preparing to unpack .../43-libtest-warn-perl_0.37-2_all.deb ... Unpacking libtest-warn-perl (0.37-2) ... Selecting previously unselected package libtest-most-perl. Preparing to unpack .../44-libtest-most-perl_0.38-1_all.deb ... Unpacking libtest-most-perl (0.38-1) ... Setting up libpipeline1:amd64 (1.5.8-1) ... Setting up libicu72:amd64 (72.1-6) ... Setting up bsdextrautils (2.40.4-4) ... Setting up libtest-deep-perl (1.204-1) ... Setting up libmagic-mgc (1:5.45-3+b1) ... Setting up libalgorithm-diff-perl (1.201-1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.24.1) ... Setting up libmagic1t64:amd64 (1:5.45-3+b1) ... Setting up gettext-base (0.23.1-1) ... Setting up m4 (1.4.19-5) ... Setting up file (1:5.45-3+b1) ... Setting up libelf1t64:amd64 (0.192-4) ... Setting up libio-string-perl (1.08-4) ... Setting up autotools-dev (20220109.1) ... Setting up libclass-data-inheritable-perl (0.10-1) ... Setting up libtext-diff-perl (1.45-2) ... Setting up libunistring5:amd64 (1.3-1) ... Setting up autopoint (0.23.1-1) ... Setting up autoconf (2.72-3) ... Setting up libcapture-tiny-perl (0.50-1) ... Setting up dwz (0.15-1+b1) ... Setting up libdata-stag-perl (0.14-3) ... Setting up sensible-utils (0.0.24) ... Setting up libuchardet0:amd64 (0.0.8-1+b2) ... Setting up libsub-uplevel-perl (0.2800-3) ... Setting up libdevel-stacktrace-perl (2.0500-1) ... Setting up libbio-perl-perl (1.7.8-1) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up automake (1:1.17-3) ... update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.1-2) ... Setting up gettext (0.23.1-1) ... Setting up libtool (2.5.4-3) ... Setting up libtest-warn-perl (0.37-2) ... Setting up libtest-differences-perl (0.71-1) ... Setting up libexception-class-perl (1.45-1) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libtest-exception-perl (0.43-3) ... Setting up dh-strip-nondeterminism (1.14.1-2) ... Setting up groff-base (1.23.0-7) ... Setting up libtest-most-perl (0.38-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.24.1) ... Processing triggers for libc-bin (2.40-7) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3/ && 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-alignio-stockholm-perl_1.7.3-2_source.changes dpkg-buildpackage: info: source package libbio-alignio-stockholm-perl dpkg-buildpackage: info: source version 1.7.3-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 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-alignio-stockholm-perl-1.7.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2" "LD=x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wl,-z,relro" Checking if your kit is complete... Looks good Generating a Unix-style Makefile Writing Makefile for Bio::AlignIO::stockholm Writing MYMETA.yml and MYMETA.json dh_auto_build make -j42 make[1]: Entering directory '/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3' cp lib/Bio/Index/Stockholm.pm blib/lib/Bio/Index/Stockholm.pm cp lib/Bio/AlignIO/stockholm.pm blib/lib/Bio/AlignIO/stockholm.pm Manifying 2 pod documents make[1]: Leaving directory '/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3' dh_auto_test make -j42 test TEST_VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3' 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..2 ok 1 - Bio/AlignIO/stockholm.pm loaded ok ok 2 - Bio/Index/Stockholm.pm loaded ok ok t/AlignIO.t .............. 1..87 ok 1 - use Bio::AlignIO::stockholm; ok 2 - An object of class 'Bio::AlignIO::stockholm' isa 'Bio::AlignIO' ok 3 - An object of class 'Bio::SimpleAlign' isa 'Bio::Align::AlignI' ok 4 ok 5 ok 6 ok 7 ok 8 ok 9 - An object of class 'Bio::Annotation::Comment' isa 'Bio::Annotation::Comment' ok 10 - Stockholm annotation ok 11 - Stockholm annotation ok 12 - stockholm output test ok 13 - An object of class 'Bio::SimpleAlign' isa 'Bio::Align::AlignI' ok 14 ok 15 ok 16 ok 17 ok 18 ok 19 ok 20 - 'Stockholm annotation' isa 'Bio::Annotation::Reference' ok 21 - Stockholm annotation ok 22 - Stockholm annotation ok 23 - Stockholm annotation ok 24 - Stockholm annotation ok 25 - An object of class 'Bio::Seq::Meta' isa 'Bio::Seq::MetaI' ok 26 - Rfam meta data ok 27 - Rfam meta data ok 28 ok 29 - An object of class 'Bio::SimpleAlign' isa 'Bio::Align::AlignI' ok 30 ok 31 ok 32 ok 33 ok 34 ok 35 - An object of class 'Bio::Seq::Meta' isa 'Bio::Seq::MetaI' ok 36 - Rfam meta data ok 37 - Rfam meta data ok 38 - An object of class 'Bio::AlignIO::stockholm' isa 'Bio::AlignIO' ok 39 ok 40 - An object of class 'Bio::SimpleAlign' isa 'Bio::Align::AlignI' ok 41 ok 42 ok 43 ok 44 ok 45 - An object of class 'Bio::Annotation::SimpleValue' isa 'Bio::Annotation::SimpleValue' ok 46 - Pfam annotation ok 47 ok 48 - An object of class 'Bio::SimpleAlign' isa 'Bio::Align::AlignI' ok 49 ok 50 ok 51 ok 52 ok 53 - An object of class 'Bio::SimpleAlign' isa 'Bio::Align::AlignI' ok 54 ok 55 ok 56 ok 57 ok 58 ok 59 - An object of class 'Bio::Seq::Meta' isa 'Bio::Seq::MetaI' ok 60 - Pfam aln meta data ok 61 - Pfam aln meta data ok 62 - Pfam aln meta data ok 63 - Pfam aln meta data ok 64 - Pfam aln meta data ok 65 - Pfam aln meta data ok 66 - Pfam seq meta data ok 67 - Pfam seq meta data ok 68 - Pfam seq meta data ok 69 - Pfam seq meta data ok 70 ok 71 - An object of class 'Bio::SeqFeature::Generic' isa 'Bio::SeqFeatureI' ok 72 - An object of class 'Bio::Seq::Meta' isa 'Bio::Seq::Meta' ok 73 - An object of class 'Bio::Annotation::Target' isa 'Bio::AnnotationI' ok 74 - An object of class 'Bio::Annotation::Target' isa 'Bio::Annotation::DBLink' 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 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-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 t/Index.t ................ 1..4 ok 1 - use Bio::Index::Stockholm; ok 2 - An object of class 'Bio::Index::Stockholm' isa 'Bio::Index::Stockholm' ok 3 ok 4 - An object of class 'Bio::SimpleAlign' isa 'Bio::SimpleAlign' ok All tests successful. Files=7, Tests=93, 1 wallclock secs ( 0.03 usr 0.02 sys + 0.61 cusr 0.09 csys = 0.75 CPU) Result: PASS make[1]: Leaving directory '/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/libbio-alignio-stockholm-perl/ make -j42 install DESTDIR=/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3/debian/libbio-alignio-stockholm-perl AM_UPDATE_INFO_DIR=no PREFIX=/usr make[1]: Entering directory '/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3' Manifying 2 pod documents Installing /build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3/debian/libbio-alignio-stockholm-perl/usr/share/perl5/Bio/AlignIO/stockholm.pm Installing /build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3/debian/libbio-alignio-stockholm-perl/usr/share/perl5/Bio/Index/Stockholm.pm Installing /build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3/debian/libbio-alignio-stockholm-perl/usr/share/man/man3/Bio::Index::Stockholm.3pm Installing /build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3/debian/libbio-alignio-stockholm-perl/usr/share/man/man3/Bio::AlignIO::stockholm.3pm make[1]: Leaving directory '/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3' dh_installdocs dh_installchangelogs dh_installman 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-alignio-stockholm-perl' in '../libbio-alignio-stockholm-perl_1.7.3-2_all.deb'. dpkg-genbuildinfo --build=binary -O../libbio-alignio-stockholm-perl_1.7.3-2_amd64.buildinfo dpkg-genchanges --build=binary -O../libbio-alignio-stockholm-perl_1.7.3-2_amd64.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/3479509 and its subdirectories I: Current time: Fri Mar 27 19:29:15 -12 2026 I: pbuilder-time-stamp: 1774682955 Sun Feb 23 01:06:17 UTC 2025 I: 1st build successful. Starting 2nd build on remote node ionos1-amd64.debian.net. Sun Feb 23 01:06:17 UTC 2025 I: Preparing to do remote build '2' on ionos1-amd64.debian.net. Sun Feb 23 01:06:17 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos1-amd64.debian.net is marked as down. Sun Feb 23 01:06:17 UTC 2025 - checking via ssh if ionos1-amd64.debian.net is up. removed '/tmp/read-only-fs-test-vdLNSN' ==================================================================================== Sun Feb 23 01:06:18 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on ionos1-amd64, called using "2 libbio-alignio-stockholm-perl unstable /srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z 1.7.3-2" as arguments. Sun Feb 23 01:06:18 UTC 2025 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-jhlenqyB" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Sun Feb 23 01:06:18 UTC 2025 I: Downloading source for unstable/libbio-alignio-stockholm-perl=1.7.3-2 Reading package lists... NOTICE: 'libbio-alignio-stockholm-perl' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/libbio-alignio-stockholm-perl.git Please use: git clone https://salsa.debian.org/med-team/libbio-alignio-stockholm-perl.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 41.7 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main libbio-alignio-stockholm-perl 1.7.3-2 (dsc) [2284 B] Get:2 http://deb.debian.org/debian unstable/main libbio-alignio-stockholm-perl 1.7.3-2 (tar) [37.6 kB] Get:3 http://deb.debian.org/debian unstable/main libbio-alignio-stockholm-perl 1.7.3-2 (diff) [1780 B] Fetched 41.7 kB in 0s (962 kB/s) Download complete and in download only mode Reading package lists... NOTICE: 'libbio-alignio-stockholm-perl' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/libbio-alignio-stockholm-perl.git Please use: git clone https://salsa.debian.org/med-team/libbio-alignio-stockholm-perl.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 41.7 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main libbio-alignio-stockholm-perl 1.7.3-2 (dsc) [2284 B] Get:2 http://deb.debian.org/debian unstable/main libbio-alignio-stockholm-perl 1.7.3-2 (tar) [37.6 kB] Get:3 http://deb.debian.org/debian unstable/main libbio-alignio-stockholm-perl 1.7.3-2 (diff) [1780 B] Fetched 41.7 kB in 0s (962 kB/s) Download complete and in download only mode ============================================================================= Re-Building libbio-alignio-stockholm-perl in unstable on amd64 on ionos1-amd64 now. Date: Sun Feb 23 01:06:19 UTC 2025 Date UTC: Sun Feb 23 01:06:19 UTC 2025 ============================================================================= ++ mktemp -t pbuilderrc_XXXX --tmpdir=/srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z + local TMPCFG=/srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z/pbuilderrc_13dh + case ${ARCH} in + case $ARCH in + locale=et_EE + language=et + case "${SUITE}" in + reproducible_buildflags=+all + extra_deb_build_options= + case "${SRCPACKAGE}" in + cat + echo BUILDDIR=/build/reproducible-path + '[' libbio-alignio-stockholm-perl = debian-installer -o libbio-alignio-stockholm-perl = debian-installer-netboot-images ']' + pbuilder_options=() + local pbuilder_options + DEBBUILDOPTS=-b + BINARYTARGET= + '[' libbio-alignio-stockholm-perl = u-boot ']' + case "${SRCPACKAGE}" in + PBUILDERTIMEOUT=24 + local PRESULT=0 + sudo timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z/pbuilderrc_13dh --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z/b2 --logfile b2/build.log libbio-alignio-stockholm-perl_1.7.3-2.dsc W: /root/.pbuilderrc does not exist I: Logging to b2/build.log I: pbuilder: network access will be disabled during build I: Current time: Sun Feb 23 15:06:19 +14 2025 I: pbuilder-time-stamp: 1740272779 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-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-alignio-stockholm-perl_1.7.3-2.dsc] I: copying [./libbio-alignio-stockholm-perl_1.7.3.orig.tar.gz] I: copying [./libbio-alignio-stockholm-perl_1.7.3-2.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./libbio-alignio-stockholm-perl_1.7.3-2.dsc: unsupported subcommand dpkg-source: info: extracting libbio-alignio-stockholm-perl in libbio-alignio-stockholm-perl-1.7.3 dpkg-source: info: unpacking libbio-alignio-stockholm-perl_1.7.3.orig.tar.gz dpkg-source: info: unpacking libbio-alignio-stockholm-perl_1.7.3-2.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3329475/tmp/hooks/D01_modify_environment starting debug: Running on ionos1-amd64. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash '/bin/sh' -> '/bin/bash' lrwxrwxrwx 1 root root 9 Feb 23 01:06 /bin/sh -> /bin/bash I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/3329475/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/3329475/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="2" [2]="37" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") BASH_VERSION='5.2.37(1)-release' BUILDDIR=/build/reproducible-path BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=amd64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=20 ' DIRSTACK=() DISTRIBUTION=unstable EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=x86_64 HOST_ARCH=amd64 IFS=' ' INVOCATION_ID=0d5d7c3cc91d4daa9f93a905e502548b LANG=C LANGUAGE=et_EE:et LC_ALL=C MACHTYPE=x86_64-pc-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=3329475 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z/pbuilderrc_13dh --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z/b2 --logfile b2/build.log libbio-alignio-stockholm-perl_1.7.3-2.dsc' SUDO_GID=110 SUDO_UID=105 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://46.16.76.132:3128 I: uname -a Linux i-capture-the-hostname 6.1.0-31-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.128-1 (2025-02-07) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin I: user script /srv/workspace/pbuilder/3329475/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: amd64 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 (= 12), libbio-perl-perl, libtest-most-perl, perl dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19775 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 (= 12); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on libbio-perl-perl; however: Package libbio-perl-perl is not installed. pbuilder-satisfydepends-dummy depends on libtest-most-perl; however: Package libtest-most-perl 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} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libalgorithm-diff-perl{a} libarchive-zip-perl{a} libbio-perl-perl{a} libcapture-tiny-perl{a} libclass-data-inheritable-perl{a} libdata-stag-perl{a} libdebhelper-perl{a} libdevel-stacktrace-perl{a} libelf1t64{a} libexception-class-perl{a} libfile-stripnondeterminism-perl{a} libicu72{a} libio-string-perl{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libsub-uplevel-perl{a} libtest-deep-perl{a} libtest-differences-perl{a} libtest-exception-perl{a} libtest-most-perl{a} libtest-warn-perl{a} libtext-diff-perl{a} libtool{a} libuchardet0{a} libunistring5{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: bioperl-run curl libace-perl libalgorithm-diff-xs-perl libalgorithm-munkres-perl libarchive-cpio-perl libarray-compare-perl libbio-asn1-entrezgene-perl libbio-perl-run-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 perl-tk wget 0 packages upgraded, 45 newly installed, 0 to remove and 0 not upgraded. Need to get 23.9 MB of archives. After unpacking 88.3 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.23.1-1 [243 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-7 [1185 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.4-4 [92.4 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-5 [294 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3 [493 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.17-3 [862 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.23.1-1 [770 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.24.1 [90.9 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 libtool all 2.5.4-3 [539 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 22 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 libunistring5 amd64 1.3-1 [476 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-6 [9421 kB] Get: 26 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [699 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.23.1-1 [1680 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 30 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.24.1 [920 kB] Get: 31 http://deb.debian.org/debian unstable/main amd64 libalgorithm-diff-perl all 1.201-1 [43.3 kB] Get: 32 http://deb.debian.org/debian unstable/main amd64 libio-string-perl all 1.08-4 [12.1 kB] Get: 33 http://deb.debian.org/debian unstable/main amd64 libdata-stag-perl all 0.14-3 [448 kB] Get: 34 http://deb.debian.org/debian unstable/main amd64 libbio-perl-perl all 1.7.8-1 [2603 kB] Get: 35 http://deb.debian.org/debian unstable/main amd64 libcapture-tiny-perl all 0.50-1 [24.6 kB] Get: 36 http://deb.debian.org/debian unstable/main amd64 libclass-data-inheritable-perl all 0.10-1 [8632 B] Get: 37 http://deb.debian.org/debian unstable/main amd64 libdevel-stacktrace-perl all 2.0500-1 [26.4 kB] Get: 38 http://deb.debian.org/debian unstable/main amd64 libexception-class-perl all 1.45-1 [34.6 kB] Get: 39 http://deb.debian.org/debian unstable/main amd64 libsub-uplevel-perl all 0.2800-3 [14.0 kB] Get: 40 http://deb.debian.org/debian unstable/main amd64 libtest-deep-perl all 1.204-1 [52.9 kB] Get: 41 http://deb.debian.org/debian unstable/main amd64 libtext-diff-perl all 1.45-2 [27.2 kB] Get: 42 http://deb.debian.org/debian unstable/main amd64 libtest-differences-perl all 0.71-1 [17.9 kB] Get: 43 http://deb.debian.org/debian unstable/main amd64 libtest-exception-perl all 0.43-3 [16.9 kB] Get: 44 http://deb.debian.org/debian unstable/main amd64 libtest-warn-perl all 0.37-2 [14.5 kB] Get: 45 http://deb.debian.org/debian unstable/main amd64 libtest-most-perl all 0.38-1 [25.1 kB] Fetched 23.9 MB in 1s (17.8 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 ... 19775 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:amd64. 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Setting up groff-base (1.23.0-7) ... Setting up libtest-most-perl (0.38-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.24.1) ... Processing triggers for libc-bin (2.40-7) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: user script /srv/workspace/pbuilder/3329475/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for unstable I: user script /srv/workspace/pbuilder/3329475/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../libbio-alignio-stockholm-perl_1.7.3-2_source.changes dpkg-buildpackage: info: source package libbio-alignio-stockholm-perl dpkg-buildpackage: info: source version 1.7.3-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 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-alignio-stockholm-perl-1.7.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2" "LD=x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wl,-z,relro" Checking if your kit is complete... Looks good Generating a Unix-style Makefile Writing Makefile for Bio::AlignIO::stockholm Writing MYMETA.yml and MYMETA.json dh_auto_build make -j20 make[1]: Entering directory '/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3' cp lib/Bio/AlignIO/stockholm.pm blib/lib/Bio/AlignIO/stockholm.pm cp lib/Bio/Index/Stockholm.pm blib/lib/Bio/Index/Stockholm.pm Manifying 2 pod documents make[1]: Leaving directory '/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3' dh_auto_test make -j20 test TEST_VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3' 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..2 ok 1 - Bio/AlignIO/stockholm.pm loaded ok ok 2 - Bio/Index/Stockholm.pm loaded ok ok t/AlignIO.t .............. 1..87 ok 1 - use Bio::AlignIO::stockholm; ok 2 - An object of class 'Bio::AlignIO::stockholm' isa 'Bio::AlignIO' ok 3 - An object of class 'Bio::SimpleAlign' isa 'Bio::Align::AlignI' ok 4 ok 5 ok 6 ok 7 ok 8 ok 9 - An object of class 'Bio::Annotation::Comment' isa 'Bio::Annotation::Comment' ok 10 - Stockholm annotation ok 11 - Stockholm annotation ok 12 - stockholm output test ok 13 - An object of class 'Bio::SimpleAlign' isa 'Bio::Align::AlignI' ok 14 ok 15 ok 16 ok 17 ok 18 ok 19 ok 20 - 'Stockholm annotation' isa 'Bio::Annotation::Reference' ok 21 - Stockholm annotation ok 22 - Stockholm annotation ok 23 - Stockholm annotation ok 24 - Stockholm annotation ok 25 - An object of class 'Bio::Seq::Meta' isa 'Bio::Seq::MetaI' ok 26 - Rfam meta data ok 27 - Rfam meta data ok 28 ok 29 - An object of class 'Bio::SimpleAlign' isa 'Bio::Align::AlignI' ok 30 ok 31 ok 32 ok 33 ok 34 ok 35 - An object of class 'Bio::Seq::Meta' isa 'Bio::Seq::MetaI' ok 36 - Rfam meta data ok 37 - Rfam meta data ok 38 - An object of class 'Bio::AlignIO::stockholm' isa 'Bio::AlignIO' ok 39 ok 40 - An object of class 'Bio::SimpleAlign' isa 'Bio::Align::AlignI' ok 41 ok 42 ok 43 ok 44 ok 45 - An object of class 'Bio::Annotation::SimpleValue' isa 'Bio::Annotation::SimpleValue' ok 46 - Pfam annotation ok 47 ok 48 - An object of class 'Bio::SimpleAlign' isa 'Bio::Align::AlignI' ok 49 ok 50 ok 51 ok 52 ok 53 - An object of class 'Bio::SimpleAlign' isa 'Bio::Align::AlignI' ok 54 ok 55 ok 56 ok 57 ok 58 ok 59 - An object of class 'Bio::Seq::Meta' isa 'Bio::Seq::MetaI' ok 60 - Pfam aln meta data ok 61 - Pfam aln meta data ok 62 - Pfam aln meta data ok 63 - Pfam aln meta data ok 64 - Pfam aln meta data ok 65 - Pfam aln meta data ok 66 - Pfam seq meta data ok 67 - Pfam seq meta data ok 68 - Pfam seq meta data ok 69 - Pfam seq meta data ok 70 ok 71 - An object of class 'Bio::SeqFeature::Generic' isa 'Bio::SeqFeatureI' ok 72 - An object of class 'Bio::Seq::Meta' isa 'Bio::Seq::Meta' ok 73 - An object of class 'Bio::Annotation::Target' isa 'Bio::AnnotationI' ok 74 - An object of class 'Bio::Annotation::Target' isa 'Bio::Annotation::DBLink' 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 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-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 t/Index.t ................ 1..4 ok 1 - use Bio::Index::Stockholm; ok 2 - An object of class 'Bio::Index::Stockholm' isa 'Bio::Index::Stockholm' ok 3 ok 4 - An object of class 'Bio::SimpleAlign' isa 'Bio::SimpleAlign' ok All tests successful. Files=7, Tests=93, 5 wallclock secs ( 0.06 usr 0.03 sys + 1.49 cusr 0.33 csys = 1.91 CPU) Result: PASS make[1]: Leaving directory '/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/libbio-alignio-stockholm-perl/ make -j20 install DESTDIR=/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3/debian/libbio-alignio-stockholm-perl AM_UPDATE_INFO_DIR=no PREFIX=/usr make[1]: Entering directory '/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3' Manifying 2 pod documents Installing /build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3/debian/libbio-alignio-stockholm-perl/usr/share/perl5/Bio/AlignIO/stockholm.pm Installing /build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3/debian/libbio-alignio-stockholm-perl/usr/share/perl5/Bio/Index/Stockholm.pm Installing /build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3/debian/libbio-alignio-stockholm-perl/usr/share/man/man3/Bio::AlignIO::stockholm.3pm Installing /build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3/debian/libbio-alignio-stockholm-perl/usr/share/man/man3/Bio::Index::Stockholm.3pm make[1]: Leaving directory '/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3' dh_installdocs dh_installchangelogs dh_installman 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-alignio-stockholm-perl' in '../libbio-alignio-stockholm-perl_1.7.3-2_all.deb'. dpkg-genbuildinfo --build=binary -O../libbio-alignio-stockholm-perl_1.7.3-2_amd64.buildinfo dpkg-genchanges --build=binary -O../libbio-alignio-stockholm-perl_1.7.3-2_amd64.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: user script /srv/workspace/pbuilder/3329475/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/3329475/tmp/hooks/B01_cleanup finished 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/3329475 and its subdirectories I: Current time: Sun Feb 23 15:08:45 +14 2025 I: pbuilder-time-stamp: 1740272925 + false + set +x Sun Feb 23 01:08:45 UTC 2025 I: Signing ./b2/libbio-alignio-stockholm-perl_1.7.3-2_amd64.buildinfo as libbio-alignio-stockholm-perl_1.7.3-2_amd64.buildinfo.asc Sun Feb 23 01:08:45 UTC 2025 I: Signed ./b2/libbio-alignio-stockholm-perl_1.7.3-2_amd64.buildinfo as ./b2/libbio-alignio-stockholm-perl_1.7.3-2_amd64.buildinfo.asc Sun Feb 23 01:08:46 UTC 2025 - build #2 for libbio-alignio-stockholm-perl/unstable/amd64 on ionos1-amd64 done. Starting cleanup. All cleanup done. Sun Feb 23 01:08:46 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-jhlenqyB, removing. /srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z: total 48 drwxr-xr-x 2 jenkins jenkins 4096 Feb 23 01:06 b1 drwxr-xr-x 2 jenkins jenkins 4096 Feb 23 01:08 b2 -rw-r--r-- 1 jenkins jenkins 2284 Mar 3 2020 libbio-alignio-stockholm-perl_1.7.3-2.dsc -rw------- 1 jenkins jenkins 33084 Feb 23 01:06 rbuildlog.djkcnRn /srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z/b1: total 88 -rw-r--r-- 1 jenkins jenkins 29258 Feb 23 01:06 build.log -rw-r--r-- 1 jenkins jenkins 1780 Feb 23 01:06 libbio-alignio-stockholm-perl_1.7.3-2.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2284 Feb 23 01:06 libbio-alignio-stockholm-perl_1.7.3-2.dsc -rw-r--r-- 1 jenkins jenkins 22532 Feb 23 01:06 libbio-alignio-stockholm-perl_1.7.3-2_all.deb -rw-r--r-- 1 jenkins jenkins 5230 Feb 23 01:06 libbio-alignio-stockholm-perl_1.7.3-2_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 6112 Feb 23 01:06 libbio-alignio-stockholm-perl_1.7.3-2_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1335 Feb 23 01:06 libbio-alignio-stockholm-perl_1.7.3-2_amd64.changes -rw-r--r-- 1 jenkins jenkins 1527 Feb 23 01:06 libbio-alignio-stockholm-perl_1.7.3-2_source.changes /srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z/b2: total 88 -rw-r--r-- 1 jenkins jenkins 31178 Feb 23 01:08 build.log -rw-r--r-- 1 jenkins jenkins 1780 Feb 23 01:08 libbio-alignio-stockholm-perl_1.7.3-2.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2284 Feb 23 01:08 libbio-alignio-stockholm-perl_1.7.3-2.dsc -rw-r--r-- 1 jenkins jenkins 22532 Feb 23 01:08 libbio-alignio-stockholm-perl_1.7.3-2_all.deb -rw-r--r-- 1 jenkins jenkins 5221 Feb 23 01:08 libbio-alignio-stockholm-perl_1.7.3-2_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 6103 Feb 23 01:08 libbio-alignio-stockholm-perl_1.7.3-2_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1335 Feb 23 01:08 libbio-alignio-stockholm-perl_1.7.3-2_amd64.changes -rw-r--r-- 1 jenkins jenkins 1527 Feb 23 01:08 libbio-alignio-stockholm-perl_1.7.3-2_source.changes Sun Feb 23 01:08:46 UTC 2025 I: Deleting $TMPDIR on ionos1-amd64.debian.net. Sun Feb 23 01:08:47 UTC 2025 I: libbio-alignio-stockholm-perl_1.7.3-2_amd64.changes: Format: 1.8 Date: Tue, 03 Mar 2020 09:00:01 +0100 Source: libbio-alignio-stockholm-perl Binary: libbio-alignio-stockholm-perl Architecture: all Version: 1.7.3-2 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: libbio-alignio-stockholm-perl - stockholm sequence input/output stream Closes: 952747 Changes: libbio-alignio-stockholm-perl (1.7.3-2) unstable; urgency=medium . * Team upload. * Add missing Breaks+Replaces: libbio-perl-perl (<< 1.7.3) Closes: #952747 * Add salsa-ci file (routine-update) Checksums-Sha1: f07b8fbb5209ca2a5c047eb90b6200de0a8dbe29 22532 libbio-alignio-stockholm-perl_1.7.3-2_all.deb 496f91ab0207b9e389b30539b1e68690461ed10a 5230 libbio-alignio-stockholm-perl_1.7.3-2_amd64.buildinfo Checksums-Sha256: c1038ab4bccc1fbcb3e43057116f25371560dd2fc073a56314014c3ccfc45a92 22532 libbio-alignio-stockholm-perl_1.7.3-2_all.deb 11279dd47b6a6e76446fdb7c42a02f5eccd3fcf29b491648c7326972f1d55439 5230 libbio-alignio-stockholm-perl_1.7.3-2_amd64.buildinfo Files: e70d54b4bf5ff6d7b08b85717570c254 22532 perl optional libbio-alignio-stockholm-perl_1.7.3-2_all.deb 0c3915387885cc4f4c56b1c37d2c5d86 5230 perl optional libbio-alignio-stockholm-perl_1.7.3-2_amd64.buildinfo removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/libbio-alignio-stockholm-perl_1.7.3-2.rbuild.log' removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/libbio-alignio-stockholm-perl_1.7.3-2.rbuild.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/unstable/amd64/libbio-alignio-stockholm-perl_1.7.3-2.build1.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/unstable/amd64/libbio-alignio-stockholm-perl_1.7.3-2.build2.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/buildinfo/unstable/amd64/libbio-alignio-stockholm-perl_1.7.3-2_amd64.buildinfo' removed '/var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/amd64/libbio-alignio-stockholm-perl_1.7.3-2.diff.gz' Diff of the two buildlogs: -- --- b1/build.log 2025-02-23 01:06:16.517219644 +0000 +++ b2/build.log 2025-02-23 01:08:46.646440322 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Fri Mar 27 19:27:41 -12 2026 -I: pbuilder-time-stamp: 1774682861 +I: Current time: Sun Feb 23 15:06:19 +14 2025 +I: pbuilder-time-stamp: 1740272779 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -22,52 +22,84 @@ dpkg-source: info: unpacking libbio-alignio-stockholm-perl_1.7.3-2.debian.tar.xz I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/3479509/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/3329475/tmp/hooks/D01_modify_environment starting +debug: Running on ionos1-amd64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Feb 23 01:06 /bin/sh -> /bin/bash +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/3329475/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/3329475/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='amd64' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' - DISTRIBUTION='unstable' - HOME='/root' - HOST_ARCH='amd64' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="37" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.2.37(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=20 ' + DIRSTACK=() + DISTRIBUTION=unstable + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='160015882a5142e19178d082759c360a' - 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='3479509' - PS1='# ' - PS2='> ' + INVOCATION_ID=0d5d7c3cc91d4daa9f93a905e502548b + LANG=C + LANGUAGE=et_EE:et + LC_ALL=C + MACHTYPE=x86_64-pc-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=3329475 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.ZL3BrB4z/pbuilderrc_B0NV --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z/b1 --logfile b1/build.log libbio-alignio-stockholm-perl_1.7.3-2.dsc' - SUDO_GID='110' - SUDO_UID='105' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://213.165.73.152:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z/pbuilderrc_13dh --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z/b2 --logfile b2/build.log libbio-alignio-stockholm-perl_1.7.3-2.dsc' + SUDO_GID=110 + SUDO_UID=105 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://46.16.76.132:3128 I: uname -a - Linux ionos5-amd64 6.12.9+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.9-1~bpo12+1 (2025-01-19) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-31-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.128-1 (2025-02-07) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/3479509/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/3329475/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -152,7 +184,7 @@ Get: 43 http://deb.debian.org/debian unstable/main amd64 libtest-exception-perl all 0.43-3 [16.9 kB] Get: 44 http://deb.debian.org/debian unstable/main amd64 libtest-warn-perl all 0.37-2 [14.5 kB] Get: 45 http://deb.debian.org/debian unstable/main amd64 libtest-most-perl all 0.38-1 [25.1 kB] -Fetched 23.9 MB in 11s (2204 kB/s) +Fetched 23.9 MB in 1s (17.8 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 ... 19775 files and directories currently installed.) @@ -347,7 +379,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3/ && 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-alignio-stockholm-perl_1.7.3-2_source.changes +I: user script /srv/workspace/pbuilder/3329475/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/3329475/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../libbio-alignio-stockholm-perl_1.7.3-2_source.changes dpkg-buildpackage: info: source package libbio-alignio-stockholm-perl dpkg-buildpackage: info: source version 1.7.3-2 dpkg-buildpackage: info: source distribution unstable @@ -369,14 +405,14 @@ Writing Makefile for Bio::AlignIO::stockholm Writing MYMETA.yml and MYMETA.json dh_auto_build - make -j42 + make -j20 make[1]: Entering directory '/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3' -cp lib/Bio/Index/Stockholm.pm blib/lib/Bio/Index/Stockholm.pm cp lib/Bio/AlignIO/stockholm.pm blib/lib/Bio/AlignIO/stockholm.pm +cp lib/Bio/Index/Stockholm.pm blib/lib/Bio/Index/Stockholm.pm Manifying 2 pod documents make[1]: Leaving directory '/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3' dh_auto_test - make -j42 test TEST_VERBOSE=1 + make -j20 test TEST_VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3' 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 ........... @@ -486,19 +522,19 @@ ok 4 - An object of class 'Bio::SimpleAlign' isa 'Bio::SimpleAlign' ok All tests successful. -Files=7, Tests=93, 1 wallclock secs ( 0.03 usr 0.02 sys + 0.61 cusr 0.09 csys = 0.75 CPU) +Files=7, Tests=93, 5 wallclock secs ( 0.06 usr 0.03 sys + 1.49 cusr 0.33 csys = 1.91 CPU) Result: PASS make[1]: Leaving directory '/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/libbio-alignio-stockholm-perl/ - make -j42 install DESTDIR=/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3/debian/libbio-alignio-stockholm-perl AM_UPDATE_INFO_DIR=no PREFIX=/usr + make -j20 install DESTDIR=/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3/debian/libbio-alignio-stockholm-perl AM_UPDATE_INFO_DIR=no PREFIX=/usr make[1]: Entering directory '/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3' Manifying 2 pod documents Installing /build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3/debian/libbio-alignio-stockholm-perl/usr/share/perl5/Bio/AlignIO/stockholm.pm Installing /build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3/debian/libbio-alignio-stockholm-perl/usr/share/perl5/Bio/Index/Stockholm.pm -Installing /build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3/debian/libbio-alignio-stockholm-perl/usr/share/man/man3/Bio::Index::Stockholm.3pm Installing /build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3/debian/libbio-alignio-stockholm-perl/usr/share/man/man3/Bio::AlignIO::stockholm.3pm +Installing /build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3/debian/libbio-alignio-stockholm-perl/usr/share/man/man3/Bio::Index::Stockholm.3pm make[1]: Leaving directory '/build/reproducible-path/libbio-alignio-stockholm-perl-1.7.3' dh_installdocs dh_installchangelogs @@ -521,12 +557,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/3329475/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/3329475/tmp/hooks/B01_cleanup finished 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/3479509 and its subdirectories -I: Current time: Fri Mar 27 19:29:15 -12 2026 -I: pbuilder-time-stamp: 1774682955 +I: removing directory /srv/workspace/pbuilder/3329475 and its subdirectories +I: Current time: Sun Feb 23 15:08:45 +14 2025 +I: pbuilder-time-stamp: 1740272925 Compressing the 2nd log... /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/amd64/libbio-alignio-stockholm-perl_1.7.3-2.diff: 69.5% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/amd64/libbio-alignio-stockholm-perl_1.7.3-2.diff.gz b2/build.log: 76.2% -- replaced with stdout Compressing the 1st log... b1/build.log: 76.8% -- replaced with stdout Sun Feb 23 01:08:48 UTC 2025 I: diffoscope 288 will be used to compare the two builds: ++ date -u +%s + DIFFOSCOPE_STAMP=/var/log/reproducible-builds/diffoscope_stamp_libbio-alignio-stockholm-perl_unstable_amd64_1740272928 + touch /var/log/reproducible-builds/diffoscope_stamp_libbio-alignio-stockholm-perl_unstable_amd64_1740272928 + RESULT=0 + systemd-run '--description=diffoscope on libbio-alignio-stockholm-perl/1.7.3-2 in unstable/amd64' --slice=rb-build-diffoscope.slice -u rb-diffoscope-amd64_2-32666 '--property=SuccessExitStatus=1 124' --user --send-sighup --pipe --wait -E TMPDIR timeout 155m nice schroot --directory /srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z --run-session -c jenkins-reproducible-unstable-diffoscope-a4b3a161-1e1c-46b7-99b2-5b2809ff21e2 -- sh -c 'export TMPDIR=/srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z/dbd-tmp-Ss9Ddxr ; timeout 150m diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z/libbio-alignio-stockholm-perl_1.7.3-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z/libbio-alignio-stockholm-perl_1.7.3-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z/libbio-alignio-stockholm-perl_1.7.3-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z/b1/libbio-alignio-stockholm-perl_1.7.3-2_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z/b2/libbio-alignio-stockholm-perl_1.7.3-2_amd64.changes' + false + set +x Running as unit: rb-diffoscope-amd64_2-32666.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z/libbio-alignio-stockholm-perl_1.7.3-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z/libbio-alignio-stockholm-perl_1.7.3-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z/libbio-alignio-stockholm-perl_1.7.3-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z/b1/libbio-alignio-stockholm-perl_1.7.3-2_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.ZL3BrB4z/b2/libbio-alignio-stockholm-perl_1.7.3-2_amd64.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: 226ms CPU time consumed: 227ms _ _ _ _ _ _ _ _ _ | (_) |__ | |__ (_) ___ __ _| (_) __ _ _ __ (_) ___ ___| |_ | | | '_ \| '_ \| |/ _ \ _____ / _` | | |/ _` | '_ \| |/ _ \ _____/ __| __| | | | |_) | |_) | | (_) |_____| (_| | | | (_| | | | | | (_) |_____\__ \ |_ |_|_|_.__/|_.__/|_|\___/ \__,_|_|_|\__, |_| |_|_|\___/ |___/\__| |___/ _ _ _ _ ___ ___| | _| |__ ___ | |_ __ ___ _ __ ___ _ __| | / _ \ / __| |/ / '_ \ / _ \| | '_ ` _ \ _____| '_ \ / _ \ '__| | | (_) | (__| <| | | | (_) | | | | | | |_____| |_) | __/ | | | \___/ \___|_|\_\_| |_|\___/|_|_| |_| |_| | .__/ \___|_| |_| |_| Sun Feb 23 01:10:26 UTC 2025 I: diffoscope 288 found no differences in the changes files, and a .buildinfo file also exists. Sun Feb 23 01:10:26 UTC 2025 I: libbio-alignio-stockholm-perl from unstable built successfully and reproducibly on amd64. INSERT 0 1 INSERT 0 1 DELETE 1 [2025-02-23 01:10:27] INFO: Starting at 2025-02-23 01:10:27.313507 [2025-02-23 01:10:27] INFO: Generating the pages of 1 package(s) [2025-02-23 01:10:27] CRITICAL: https://tests.reproducible-builds.org/debian/unstable/amd64/libbio-alignio-stockholm-perl didn't produce a buildlog, even though it has been built. [2025-02-23 01:10:28] INFO: Finished at 2025-02-23 01:10:28.128467, took: 0:00:00.814969 Sun Feb 23 01:10:28 UTC 2025 - successfully updated the database and updated https://tests.reproducible-builds.org/debian/rb-pkg/unstable/amd64/libbio-alignio-stockholm-perl.html Sun Feb 23 01:10:28 UTC 2025 I: Submitting .buildinfo files to external archives: Sun Feb 23 01:10:28 UTC 2025 I: Submitting 8.0K b1/libbio-alignio-stockholm-perl_1.7.3-2_amd64.buildinfo.asc https://buildinfo.debian.net/496f91ab0207b9e389b30539b1e68690461ed10a/libbio-alignio-stockholm-perl_1.7.3-2_all Sun Feb 23 01:10:29 UTC 2025 I: Submitting 8.0K b2/libbio-alignio-stockholm-perl_1.7.3-2_amd64.buildinfo.asc https://buildinfo.debian.net/7f6d3760b721bcd63e9e63f797837379ab95a2d4/libbio-alignio-stockholm-perl_1.7.3-2_all Sun Feb 23 01:10:33 UTC 2025 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sun Feb 23 01:10:33 UTC 2025 I: Done submitting .buildinfo files. Sun Feb 23 01:10:33 UTC 2025 I: Removing signed libbio-alignio-stockholm-perl_1.7.3-2_amd64.buildinfo.asc files: removed './b1/libbio-alignio-stockholm-perl_1.7.3-2_amd64.buildinfo.asc' removed './b2/libbio-alignio-stockholm-perl_1.7.3-2_amd64.buildinfo.asc' 1740273033 amd64 unstable libbio-alignio-stockholm-perl Starting cleanup. /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/libbio-alignio-stockholm-perl_1.7.3-2.rbuild.log: 74.4% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/libbio-alignio-stockholm-perl_1.7.3-2.rbuild.log.gz [2025-02-23 01:10:33] INFO: Starting at 2025-02-23 01:10:33.530744 [2025-02-23 01:10:33] INFO: Generating the pages of 1 package(s) [2025-02-23 01:10:34] INFO: Finished at 2025-02-23 01:10:34.025607, took: 0:00:00.494873 All cleanup done. Sun Feb 23 01:10:34 UTC 2025 - total duration: 0h 5m 55s. Sun Feb 23 01:10:34 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-X7pjS5JU, removing. Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 6min 2.939s CPU time consumed: 8.349s