Running as unit: rb-build-amd64_2-32557.service ==================================================================================== Sat Feb 22 01:04:13 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. Sat Feb 22 01:04:13 UTC 2025 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-I74Tyq7T" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Sat Feb 22 01:04:13 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos5-amd64.debian.net is marked as down. Sat Feb 22 01:04:13 UTC 2025 - checking via ssh if ionos5-amd64.debian.net is up. removed '/tmp/read-only-fs-test-ewuDMh' Sat Feb 22 01:04:14 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos1-amd64.debian.net is marked as down. Sat Feb 22 01:04:14 UTC 2025 - checking via ssh if ionos1-amd64.debian.net is up. removed '/tmp/read-only-fs-test-6OL0uI' ok, let's check if genometester is building anywhere yet… ok, genometester is not building anywhere… UPDATE 1 ============================================================================= Initialising reproducibly build of genometester 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. ============================================================================= Sat Feb 22 01:04:26 UTC 2025 I: starting to build genometester/unstable/amd64 on jenkins on '2025-02-22 01:04' Sat Feb 22 01:04:26 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_2/32557/console.log 1740186266 amd64 unstable genometester Sat Feb 22 01:04:26 UTC 2025 I: Downloading source for unstable/genometester=4.0+git20200511.91cecb5+dfsg-1 --2025-02-22 01:04:26-- http://deb.debian.org/debian/pool/main/g/genometester/genometester_4.0%2bgit20200511.91cecb5%2bdfsg-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2224 (2.2K) [text/prs.lines.tag] Saving to: ‘genometester_4.0+git20200511.91cecb5+dfsg-1.dsc’ 0K .. 100% 262M=0s 2025-02-22 01:04:26 (262 MB/s) - ‘genometester_4.0+git20200511.91cecb5+dfsg-1.dsc’ saved [2224/2224] --2025-02-22 01:04:26-- http://deb.debian.org/debian/pool/main/g/genometester/genometester_4.0%2bgit20200511.91cecb5%2bdfsg-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2224 (2.2K) [text/prs.lines.tag] Saving to: ‘genometester_4.0+git20200511.91cecb5+dfsg-1.dsc’ 0K .. 100% 262M=0s 2025-02-22 01:04:26 (262 MB/s) - ‘genometester_4.0+git20200511.91cecb5+dfsg-1.dsc’ saved [2224/2224] Sat Feb 22 01:04:26 UTC 2025 I: genometester_4.0+git20200511.91cecb5+dfsg-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: genometester Binary: genometester Architecture: any Version: 4.0+git20200511.91cecb5+dfsg-1 Maintainer: Debian Med Packaging Team Uploaders: Liubov Chuprikova , Andreas Tille Homepage: https://github.com/bioinfo-ut/GenomeTester4 Standards-Version: 4.5.0 Vcs-Browser: https://salsa.debian.org/med-team/genometester Vcs-Git: https://salsa.debian.org/med-team/genometester.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 12) Package-List: genometester deb science optional arch=any Checksums-Sha1: 9bb2833f18dd955907cb4eb34c60f5a161714b12 87872 genometester_4.0+git20200511.91cecb5+dfsg.orig.tar.xz f06ad509d6ccab4724444478241842469a855ce8 232860 genometester_4.0+git20200511.91cecb5+dfsg-1.debian.tar.xz Checksums-Sha256: 4b1360ab90dd0469945d7c88e1e361804849e27e15594e132882ffb84ae25808 87872 genometester_4.0+git20200511.91cecb5+dfsg.orig.tar.xz 1dd432ab7e6eb091554876f38d27a72d6cdb6fa511ab310ad2df7ebb4c59763d 232860 genometester_4.0+git20200511.91cecb5+dfsg-1.debian.tar.xz Files: 25bdcb96a8dd105d0944c144b53c606b 87872 genometester_4.0+git20200511.91cecb5+dfsg.orig.tar.xz 396b72e53338bd3173402c3baa7403ce 232860 genometester_4.0+git20200511.91cecb5+dfsg-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJHBAEBCAAxFiEEhMGXeonn7+0+XKYuL9i+2sAg7tEFAl7BfoQTHG1vZWxsZXJA ZGViaWFuLm9yZwAKCRAv2L7awCDu0XMGD/4rxUZ5IVCoR2dnaBQrNUfkA/RVigUs +dBKucXGFw1g2981A10lsoyVhAgqglFcilBNg5VDrgnZqBBmujWytSB9D4xsHMaK 9y4gXOAU9PeGMTSDM844kIuuv66I6y4HtXbZ2/f7QnTgZ8xU/E6I1SpXeteO9wqj g02O4XF5Z6g6W29JJ80s+2vEACoB18lzfrJMCeXBwCWAKxnLjLPbHlwsZzEKJUI7 pfIWvQX4+Zm2xS1cI6W8rqaEUuvDhGBbck/PULdqPIOz6/QhyyR0cG2ZTlLUOFXt ARGzPKEYtd09N8RzQAK4pVHQQxCkXl8lrh0vWwRTho1yxgJ3Qd8SrUj3IeOMjeaX +/B0ySZAylKGBKSM4BkiwvYa/1458BJv/L1rrtU2YGGIBfAkYtxfbCNitNRomtAQ WXAOke8+0UKPSwNe18XR9Y2uiOyfryVco6clMPQfFiYAdVdCnkNMED+r1PZ4eOZ1 R7QKpeIo3Kk1QCd3iWN7mkDO63aQY9FqA/WYzCQvWOXaf6XgQ0RL9yWMDot22iGE FzLwRzdK7WPw8pDYToUSeB3a4iGSVpKIHE0cwafcfrmvZwKUvE5F6Q3DdMmlezNE EIsnV1+zI6nN0/SMC1K1vt8gadHMjJtLlI7uL37c/T4q/r8zuT53U5DWimJsjwUt 4lvNRgibXH45jw== =eWXy -----END PGP SIGNATURE----- Sat Feb 22 01:04:26 UTC 2025 I: Checking whether the package is not for us Sat Feb 22 01:04:26 UTC 2025 I: Starting 1st build on remote node ionos5-amd64.debian.net. Sat Feb 22 01:04:26 UTC 2025 I: Preparing to do remote build '1' on ionos5-amd64.debian.net. Sat Feb 22 01:04:26 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos5-amd64.debian.net is marked as down. Sat Feb 22 01:04:26 UTC 2025 - checking via ssh if ionos5-amd64.debian.net is up. removed '/tmp/read-only-fs-test-ZJzehb' ==================================================================================== Fri Mar 27 07:27:27 UTC 2026 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on ionos5-amd64, called using "1 genometester unstable /srv/reproducible-results/rbuild-debian/r-b-build.bCOhFgRG 4.0+git20200511.91cecb5+dfsg-1" as arguments. Fri Mar 27 07:27:27 UTC 2026 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-Tug4ch7H" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Fri Mar 27 07:27:27 UTC 2026 I: Downloading source for unstable/genometester=4.0+git20200511.91cecb5+dfsg-1 Reading package lists... NOTICE: 'genometester' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/genometester.git Please use: git clone https://salsa.debian.org/med-team/genometester.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 323 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main genometester 4.0+git20200511.91cecb5+dfsg-1 (dsc) [2224 B] Get:2 http://deb.debian.org/debian unstable/main genometester 4.0+git20200511.91cecb5+dfsg-1 (tar) [87.9 kB] Get:3 http://deb.debian.org/debian unstable/main genometester 4.0+git20200511.91cecb5+dfsg-1 (diff) [233 kB] Fetched 323 kB in 0s (13.3 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'genometester' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/genometester.git Please use: git clone https://salsa.debian.org/med-team/genometester.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 323 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main genometester 4.0+git20200511.91cecb5+dfsg-1 (dsc) [2224 B] Get:2 http://deb.debian.org/debian unstable/main genometester 4.0+git20200511.91cecb5+dfsg-1 (tar) [87.9 kB] Get:3 http://deb.debian.org/debian unstable/main genometester 4.0+git20200511.91cecb5+dfsg-1 (diff) [233 kB] Fetched 323 kB in 0s (13.3 MB/s) Download complete and in download only mode ============================================================================= Building genometester in unstable on amd64 on ionos5-amd64 now. Date: Fri Mar 27 07:27:27 UTC 2026 Date UTC: Fri Mar 27 07:27:27 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: Thu Mar 26 19:27:28 -12 2026 I: pbuilder-time-stamp: 1774596448 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 [genometester_4.0+git20200511.91cecb5+dfsg-1.dsc] I: copying [./genometester_4.0+git20200511.91cecb5+dfsg.orig.tar.xz] I: copying [./genometester_4.0+git20200511.91cecb5+dfsg-1.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./genometester_4.0+git20200511.91cecb5+dfsg-1.dsc: unsupported subcommand dpkg-source: info: extracting genometester in genometester-4.0+git20200511.91cecb5+dfsg dpkg-source: info: unpacking genometester_4.0+git20200511.91cecb5+dfsg.orig.tar.xz dpkg-source: info: unpacking genometester_4.0+git20200511.91cecb5+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying add_debug_symbols.patch dpkg-source: info: applying hardening.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/4150220/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='cb3631dc5d164d94b5212b3162e73260' 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='4150220' 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.bCOhFgRG/pbuilderrc_ppCc --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.bCOhFgRG/b1 --logfile b1/build.log genometester_4.0+git20200511.91cecb5+dfsg-1.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/4150220/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) 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. 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} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libicu72{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{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: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 30 newly installed, 0 to remove and 0 not upgraded. Need to get 20.6 MB of archives. After unpacking 77.9 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] Fetched 20.6 MB in 3s (7822 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) ... Setting up libpipeline1:amd64 (1.5.8-1) ... Setting up libicu72:amd64 (72.1-6) ... Setting up bsdextrautils (2.40.4-4) ... Setting up libmagic-mgc (1:5.45-3+b1) ... 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 autotools-dev (20220109.1) ... Setting up libunistring5:amd64 (1.3-1) ... Setting up autopoint (0.23.1-1) ... Setting up autoconf (2.72-3) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libuchardet0:amd64 (0.0.8-1+b2) ... 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 intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.14.1-2) ... Setting up groff-base (1.23.0-7) ... 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/genometester-4.0+git20200511.91cecb5+dfsg/ && 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 > ../genometester_4.0+git20200511.91cecb5+dfsg-1_source.changes dpkg-buildpackage: info: source package genometester dpkg-buildpackage: info: source version 4.0+git20200511.91cecb5+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Steffen Moeller dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --sourcedirectory=src debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg' dh_auto_clean cd src && make -j42 clean make[2]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' rm -f *.o glistmaker glistquery glistcompare make[2]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' rm -f src/gdistribution src/gmer_caller src/gmer_counter make[1]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg' dh_autoreconf_clean -O--sourcedirectory=src dh_clean -O--sourcedirectory=src debian/rules binary dh binary --sourcedirectory=src dh_update_autotools_config -O--sourcedirectory=src dh_autoreconf -O--sourcedirectory=src dh_auto_configure -O--sourcedirectory=src debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg' dh_auto_build cd src && make -j42 "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' gcc glistmaker.c common.c common.h fasta.c fasta.h wordtable.c wordtable.h wordmap.c wordmap.h buffer.c buffer.h sequence.c sequence.h sequence-file.c sequence-file.h queue.c queue.h utils.c utils.h -o glistmaker -lm -lpthread -lrt -g -O2 -ffile-prefix-map=/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I. -O3 -g -Wall -Wl,-z,relro -Wl,-z,now gcc glistquery.c wordtable.c wordtable.h wordmap.c wordmap.h fasta.c fasta.h buffer.c buffer.h sequence.c sequence.h sequence-file.c sequence-file.h common.c common.h queue.c queue.h utils.c utils.h -o glistquery -lm -lpthread -lrt -g -O2 -ffile-prefix-map=/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I. -O3 -g -Wall -Wl,-z,relro -Wl,-z,now gcc glistcompare.c wordtable.c wordmap.c fasta.c buffer.c sequence.c sequence-file.c sequence-file.h common.c queue.c queue.h utils.c -o glistcompare -lm -lpthread -lrt -g -O2 -ffile-prefix-map=/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I. -O3 -g -Wall -Wl,-z,relro -Wl,-z,now glistmaker.c: In function ‘process’: glistmaker.c:380:33: warning: ‘t’ may be used uninitialized [-Wmaybe-uninitialized] 380 | wordtable_build_filename (t[0], c, 1024, outputname); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ glistmaker.c:373:44: note: ‘t’ declared here 373 | wordtable *t[MAX_MERGED_TABLES]; | ^ make[2]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' dh_auto_build -- gmer_counter cd src && make -j42 "INSTALL=install --strip-program=true" gmer_counter make[2]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' gcc gmer_counter.c index.c index.h trie.c trie.h wordmap.c wordmap.h sequence.c sequence.h sequence-file.c sequence-file.h wordtable.c wordtable.h fasta.c fasta.h thread-pool.c thread-pool.h queue.c queue.h utils.c utils.h database.c database.h -o gmer_counter -lm -lpthread -lrt -g -O2 -ffile-prefix-map=/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I. -O3 -g -Wall -Wl,-z,relro -Wl,-z,now -Wall make[2]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' dh_auto_build -- gmer_caller cd src && make -j42 "INSTALL=install --strip-program=true" gmer_caller make[2]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' gcc binomial.c binomial.h genotypes.c genotypes.h simplex.c simplex.h thread-pool.c thread-pool.h utils.c utils.h gmer_caller.c -o gmer_caller -lm -lpthread -lrt -g -O2 -ffile-prefix-map=/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I. -O3 -g -Wall -Wl,-z,relro -Wl,-z,now -Wall gmer_caller.c: In function ‘main’: gmer_caller.c:495:16: warning: variable ‘coverage_specified’ set but not used [-Wunused-but-set-variable] 495 | unsigned int coverage_specified = 0; | ^~~~~~~~~~~~~~~~~~ gmer_caller.c: At top level: gmer_caller.c:903:1: warning: ‘logL2’ defined but not used [-Wunused-function] 903 | logL2 (const float arg[], unsigned int count, unsigned int tulem2[], unsigned int katvus2[]) | ^~~~~ gmer_caller.c: In function ‘parse_calls’: gmer_caller.c:167:24: warning: ‘best_a’ may be used uninitialized [-Wmaybe-uninitialized] 167 | calls[i].counts[0] = best_a; | ~~~~~~~~~~~~~~~~~~~^~~~~~~~ gmer_caller.c:150:9: note: ‘best_a’ was declared here 150 | int best_a, best_b, best_delta; | ^~~~~~ gmer_caller.c:168:24: warning: ‘best_b’ may be used uninitialized [-Wmaybe-uninitialized] 168 | calls[i].counts[1] = best_b; | ~~~~~~~~~~~~~~~~~~~^~~~~~~~ gmer_caller.c:150:17: note: ‘best_b’ was declared here 150 | int best_a, best_b, best_delta; | ^~~~~~ gmer_caller.c: In function ‘main’: gmer_caller.c:785:9: warning: ‘calls_x’ may be used uninitialized [-Wmaybe-uninitialized] 785 | print_genotypes (lines, calls_x, nx, params, pB, (non_canonical) ? 0 : 2, prob_cutoff, alternatives, nthreads); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gmer_caller.c:509:22: note: ‘calls_x’ was declared here 509 | SNPCall *calls_a, *calls_x, *calls_y; | ^~~~~~~ make[2]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' dh_auto_build -- gdistribution cd src && make -j42 "INSTALL=install --strip-program=true" gdistribution make[2]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' gcc gdistribution.c wordtable.c wordmap.c fasta.c buffer.c sequence.c sequence-file.c sequence-file.h common.c queue.c queue.h utils.c -o gdistribution -lm -lpthread -lrt -g -O2 -ffile-prefix-map=/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I. -O3 -g -Wall -Wl,-z,relro -Wl,-z,now gdistribution.c: In function ‘main’: gdistribution.c:55:9: warning: unused variable ‘freqs’ [-Wunused-variable] 55 | Freq *freqs; | ^~~~~ make[2]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' make[1]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg' dh_auto_test -O--sourcedirectory=src create-stamp debian/debhelper-build-stamp dh_testroot -O--sourcedirectory=src dh_prep -O--sourcedirectory=src dh_auto_install --destdir=debian/genometester/ -O--sourcedirectory=src dh_install -O--sourcedirectory=src dh_installdocs -O--sourcedirectory=src dh_installchangelogs -O--sourcedirectory=src dh_installman -O--sourcedirectory=src dh_installinit -O--sourcedirectory=src dh_installsystemduser -O--sourcedirectory=src dh_perl -O--sourcedirectory=src dh_link -O--sourcedirectory=src dh_strip_nondeterminism -O--sourcedirectory=src dh_compress -O--sourcedirectory=src dh_fixperms -O--sourcedirectory=src dh_missing -O--sourcedirectory=src dh_dwz -O--sourcedirectory=src dh_strip -O--sourcedirectory=src dh_makeshlibs -O--sourcedirectory=src dh_shlibdeps -O--sourcedirectory=src dh_installdeb -O--sourcedirectory=src dh_gencontrol -O--sourcedirectory=src dh_md5sums -O--sourcedirectory=src dh_builddeb -O--sourcedirectory=src dpkg-deb: building package 'genometester' in '../genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.deb'. dpkg-deb: building package 'genometester-dbgsym' in '../genometester-dbgsym_4.0+git20200511.91cecb5+dfsg-1_amd64.deb'. dpkg-genbuildinfo --build=binary -O../genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.buildinfo dpkg-genchanges --build=binary -O../genometester_4.0+git20200511.91cecb5+dfsg-1_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: including full 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/4150220 and its subdirectories I: Current time: Thu Mar 26 19:28:26 -12 2026 I: pbuilder-time-stamp: 1774596506 Fri Mar 27 07:28:26 UTC 2026 I: Signing ./b1/genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.buildinfo as genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.buildinfo.asc Fri Mar 27 07:28:26 UTC 2026 I: Signed ./b1/genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.buildinfo as ./b1/genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.buildinfo.asc Fri Mar 27 07:28:26 UTC 2026 - build #1 for genometester/unstable/amd64 on ionos5-amd64 done. Starting cleanup. All cleanup done. Fri Mar 27 07:28:26 UTC 2026 - reproducible_build.sh stopped running as /tmp/jenkins-script-Tug4ch7H, removing. /srv/reproducible-results/rbuild-debian/r-b-build.bCOhFgRG: total 16 drwxr-xr-x 2 jenkins jenkins 4096 Feb 22 01:05 b1 drwxr-xr-x 2 jenkins jenkins 4096 Feb 22 01:04 b2 -rw-r--r-- 1 jenkins jenkins 2224 May 17 2020 genometester_4.0+git20200511.91cecb5+dfsg-1.dsc -rw------- 1 jenkins jenkins 3477 Feb 22 01:04 rbuildlog.4FI69qF /srv/reproducible-results/rbuild-debian/r-b-build.bCOhFgRG/b1: total 956 -rw-r--r-- 1 jenkins jenkins 25709 Feb 22 01:05 build.log -rw-r--r-- 1 jenkins jenkins 284744 Feb 22 01:05 genometester-dbgsym_4.0+git20200511.91cecb5+dfsg-1_amd64.deb -rw-r--r-- 1 jenkins jenkins 232860 Feb 22 01:05 genometester_4.0+git20200511.91cecb5+dfsg-1.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2224 Feb 22 01:05 genometester_4.0+git20200511.91cecb5+dfsg-1.dsc -rw-r--r-- 1 jenkins jenkins 5101 Feb 22 01:05 genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 5983 Feb 22 01:05 genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 2035 Feb 22 01:05 genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.changes -rw-r--r-- 1 jenkins jenkins 308976 Feb 22 01:05 genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.deb -rw-r--r-- 1 jenkins jenkins 2221 Feb 22 01:05 genometester_4.0+git20200511.91cecb5+dfsg-1_source.changes -rw-r--r-- 1 jenkins jenkins 87872 Feb 22 01:05 genometester_4.0+git20200511.91cecb5+dfsg.orig.tar.xz /srv/reproducible-results/rbuild-debian/r-b-build.bCOhFgRG/b2: total 0 Sat Feb 22 01:05:26 UTC 2025 I: Deleting $TMPDIR on ionos5-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Thu Mar 26 19:27:28 -12 2026 I: pbuilder-time-stamp: 1774596448 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 [genometester_4.0+git20200511.91cecb5+dfsg-1.dsc] I: copying [./genometester_4.0+git20200511.91cecb5+dfsg.orig.tar.xz] I: copying [./genometester_4.0+git20200511.91cecb5+dfsg-1.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./genometester_4.0+git20200511.91cecb5+dfsg-1.dsc: unsupported subcommand dpkg-source: info: extracting genometester in genometester-4.0+git20200511.91cecb5+dfsg dpkg-source: info: unpacking genometester_4.0+git20200511.91cecb5+dfsg.orig.tar.xz dpkg-source: info: unpacking genometester_4.0+git20200511.91cecb5+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying add_debug_symbols.patch dpkg-source: info: applying hardening.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/4150220/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='cb3631dc5d164d94b5212b3162e73260' 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='4150220' 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.bCOhFgRG/pbuilderrc_ppCc --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.bCOhFgRG/b1 --logfile b1/build.log genometester_4.0+git20200511.91cecb5+dfsg-1.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/4150220/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) 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. 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} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libicu72{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{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: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 30 newly installed, 0 to remove and 0 not upgraded. Need to get 20.6 MB of archives. After unpacking 77.9 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] Fetched 20.6 MB in 3s (7822 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) ... Setting up libpipeline1:amd64 (1.5.8-1) ... Setting up libicu72:amd64 (72.1-6) ... Setting up bsdextrautils (2.40.4-4) ... Setting up libmagic-mgc (1:5.45-3+b1) ... 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 autotools-dev (20220109.1) ... Setting up libunistring5:amd64 (1.3-1) ... Setting up autopoint (0.23.1-1) ... Setting up autoconf (2.72-3) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libuchardet0:amd64 (0.0.8-1+b2) ... 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 intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.14.1-2) ... Setting up groff-base (1.23.0-7) ... 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/genometester-4.0+git20200511.91cecb5+dfsg/ && 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 > ../genometester_4.0+git20200511.91cecb5+dfsg-1_source.changes dpkg-buildpackage: info: source package genometester dpkg-buildpackage: info: source version 4.0+git20200511.91cecb5+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Steffen Moeller dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --sourcedirectory=src debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg' dh_auto_clean cd src && make -j42 clean make[2]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' rm -f *.o glistmaker glistquery glistcompare make[2]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' rm -f src/gdistribution src/gmer_caller src/gmer_counter make[1]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg' dh_autoreconf_clean -O--sourcedirectory=src dh_clean -O--sourcedirectory=src debian/rules binary dh binary --sourcedirectory=src dh_update_autotools_config -O--sourcedirectory=src dh_autoreconf -O--sourcedirectory=src dh_auto_configure -O--sourcedirectory=src debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg' dh_auto_build cd src && make -j42 "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' gcc glistmaker.c common.c common.h fasta.c fasta.h wordtable.c wordtable.h wordmap.c wordmap.h buffer.c buffer.h sequence.c sequence.h sequence-file.c sequence-file.h queue.c queue.h utils.c utils.h -o glistmaker -lm -lpthread -lrt -g -O2 -ffile-prefix-map=/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I. -O3 -g -Wall -Wl,-z,relro -Wl,-z,now gcc glistquery.c wordtable.c wordtable.h wordmap.c wordmap.h fasta.c fasta.h buffer.c buffer.h sequence.c sequence.h sequence-file.c sequence-file.h common.c common.h queue.c queue.h utils.c utils.h -o glistquery -lm -lpthread -lrt -g -O2 -ffile-prefix-map=/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I. -O3 -g -Wall -Wl,-z,relro -Wl,-z,now gcc glistcompare.c wordtable.c wordmap.c fasta.c buffer.c sequence.c sequence-file.c sequence-file.h common.c queue.c queue.h utils.c -o glistcompare -lm -lpthread -lrt -g -O2 -ffile-prefix-map=/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I. -O3 -g -Wall -Wl,-z,relro -Wl,-z,now glistmaker.c: In function ‘process’: glistmaker.c:380:33: warning: ‘t’ may be used uninitialized [-Wmaybe-uninitialized] 380 | wordtable_build_filename (t[0], c, 1024, outputname); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ glistmaker.c:373:44: note: ‘t’ declared here 373 | wordtable *t[MAX_MERGED_TABLES]; | ^ make[2]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' dh_auto_build -- gmer_counter cd src && make -j42 "INSTALL=install --strip-program=true" gmer_counter make[2]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' gcc gmer_counter.c index.c index.h trie.c trie.h wordmap.c wordmap.h sequence.c sequence.h sequence-file.c sequence-file.h wordtable.c wordtable.h fasta.c fasta.h thread-pool.c thread-pool.h queue.c queue.h utils.c utils.h database.c database.h -o gmer_counter -lm -lpthread -lrt -g -O2 -ffile-prefix-map=/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I. -O3 -g -Wall -Wl,-z,relro -Wl,-z,now -Wall make[2]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' dh_auto_build -- gmer_caller cd src && make -j42 "INSTALL=install --strip-program=true" gmer_caller make[2]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' gcc binomial.c binomial.h genotypes.c genotypes.h simplex.c simplex.h thread-pool.c thread-pool.h utils.c utils.h gmer_caller.c -o gmer_caller -lm -lpthread -lrt -g -O2 -ffile-prefix-map=/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I. -O3 -g -Wall -Wl,-z,relro -Wl,-z,now -Wall gmer_caller.c: In function ‘main’: gmer_caller.c:495:16: warning: variable ‘coverage_specified’ set but not used [-Wunused-but-set-variable] 495 | unsigned int coverage_specified = 0; | ^~~~~~~~~~~~~~~~~~ gmer_caller.c: At top level: gmer_caller.c:903:1: warning: ‘logL2’ defined but not used [-Wunused-function] 903 | logL2 (const float arg[], unsigned int count, unsigned int tulem2[], unsigned int katvus2[]) | ^~~~~ gmer_caller.c: In function ‘parse_calls’: gmer_caller.c:167:24: warning: ‘best_a’ may be used uninitialized [-Wmaybe-uninitialized] 167 | calls[i].counts[0] = best_a; | ~~~~~~~~~~~~~~~~~~~^~~~~~~~ gmer_caller.c:150:9: note: ‘best_a’ was declared here 150 | int best_a, best_b, best_delta; | ^~~~~~ gmer_caller.c:168:24: warning: ‘best_b’ may be used uninitialized [-Wmaybe-uninitialized] 168 | calls[i].counts[1] = best_b; | ~~~~~~~~~~~~~~~~~~~^~~~~~~~ gmer_caller.c:150:17: note: ‘best_b’ was declared here 150 | int best_a, best_b, best_delta; | ^~~~~~ gmer_caller.c: In function ‘main’: gmer_caller.c:785:9: warning: ‘calls_x’ may be used uninitialized [-Wmaybe-uninitialized] 785 | print_genotypes (lines, calls_x, nx, params, pB, (non_canonical) ? 0 : 2, prob_cutoff, alternatives, nthreads); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gmer_caller.c:509:22: note: ‘calls_x’ was declared here 509 | SNPCall *calls_a, *calls_x, *calls_y; | ^~~~~~~ make[2]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' dh_auto_build -- gdistribution cd src && make -j42 "INSTALL=install --strip-program=true" gdistribution make[2]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' gcc gdistribution.c wordtable.c wordmap.c fasta.c buffer.c sequence.c sequence-file.c sequence-file.h common.c queue.c queue.h utils.c -o gdistribution -lm -lpthread -lrt -g -O2 -ffile-prefix-map=/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I. -O3 -g -Wall -Wl,-z,relro -Wl,-z,now gdistribution.c: In function ‘main’: gdistribution.c:55:9: warning: unused variable ‘freqs’ [-Wunused-variable] 55 | Freq *freqs; | ^~~~~ make[2]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' make[1]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg' dh_auto_test -O--sourcedirectory=src create-stamp debian/debhelper-build-stamp dh_testroot -O--sourcedirectory=src dh_prep -O--sourcedirectory=src dh_auto_install --destdir=debian/genometester/ -O--sourcedirectory=src dh_install -O--sourcedirectory=src dh_installdocs -O--sourcedirectory=src dh_installchangelogs -O--sourcedirectory=src dh_installman -O--sourcedirectory=src dh_installinit -O--sourcedirectory=src dh_installsystemduser -O--sourcedirectory=src dh_perl -O--sourcedirectory=src dh_link -O--sourcedirectory=src dh_strip_nondeterminism -O--sourcedirectory=src dh_compress -O--sourcedirectory=src dh_fixperms -O--sourcedirectory=src dh_missing -O--sourcedirectory=src dh_dwz -O--sourcedirectory=src dh_strip -O--sourcedirectory=src dh_makeshlibs -O--sourcedirectory=src dh_shlibdeps -O--sourcedirectory=src dh_installdeb -O--sourcedirectory=src dh_gencontrol -O--sourcedirectory=src dh_md5sums -O--sourcedirectory=src dh_builddeb -O--sourcedirectory=src dpkg-deb: building package 'genometester' in '../genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.deb'. dpkg-deb: building package 'genometester-dbgsym' in '../genometester-dbgsym_4.0+git20200511.91cecb5+dfsg-1_amd64.deb'. dpkg-genbuildinfo --build=binary -O../genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.buildinfo dpkg-genchanges --build=binary -O../genometester_4.0+git20200511.91cecb5+dfsg-1_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: including full 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/4150220 and its subdirectories I: Current time: Thu Mar 26 19:28:26 -12 2026 I: pbuilder-time-stamp: 1774596506 Sat Feb 22 01:05:27 UTC 2025 I: 1st build successful. Starting 2nd build on remote node ionos1-amd64.debian.net. Sat Feb 22 01:05:27 UTC 2025 I: Preparing to do remote build '2' on ionos1-amd64.debian.net. Sat Feb 22 01:05:27 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos1-amd64.debian.net is marked as down. Sat Feb 22 01:05:27 UTC 2025 - checking via ssh if ionos1-amd64.debian.net is up. removed '/tmp/read-only-fs-test-RZ0KnU' ==================================================================================== Sat Feb 22 01:05:28 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on ionos1-amd64, called using "2 genometester unstable /srv/reproducible-results/rbuild-debian/r-b-build.bCOhFgRG 4.0+git20200511.91cecb5+dfsg-1" as arguments. Sat Feb 22 01:05:28 UTC 2025 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-LLyDIawJ" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Sat Feb 22 01:05:28 UTC 2025 I: Downloading source for unstable/genometester=4.0+git20200511.91cecb5+dfsg-1 Reading package lists... NOTICE: 'genometester' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/genometester.git Please use: git clone https://salsa.debian.org/med-team/genometester.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 323 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main genometester 4.0+git20200511.91cecb5+dfsg-1 (dsc) [2224 B] Get:2 http://deb.debian.org/debian unstable/main genometester 4.0+git20200511.91cecb5+dfsg-1 (tar) [87.9 kB] Get:3 http://deb.debian.org/debian unstable/main genometester 4.0+git20200511.91cecb5+dfsg-1 (diff) [233 kB] Fetched 323 kB in 0s (6670 kB/s) Download complete and in download only mode Reading package lists... NOTICE: 'genometester' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/genometester.git Please use: git clone https://salsa.debian.org/med-team/genometester.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 323 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main genometester 4.0+git20200511.91cecb5+dfsg-1 (dsc) [2224 B] Get:2 http://deb.debian.org/debian unstable/main genometester 4.0+git20200511.91cecb5+dfsg-1 (tar) [87.9 kB] Get:3 http://deb.debian.org/debian unstable/main genometester 4.0+git20200511.91cecb5+dfsg-1 (diff) [233 kB] Fetched 323 kB in 0s (6670 kB/s) Download complete and in download only mode ============================================================================= Re-Building genometester in unstable on amd64 on ionos1-amd64 now. Date: Sat Feb 22 01:05:29 UTC 2025 Date UTC: Sat Feb 22 01:05:29 UTC 2025 ============================================================================= ++ mktemp -t pbuilderrc_XXXX --tmpdir=/srv/reproducible-results/rbuild-debian/r-b-build.bCOhFgRG + local TMPCFG=/srv/reproducible-results/rbuild-debian/r-b-build.bCOhFgRG/pbuilderrc_UzD3 + case ${ARCH} in + case $ARCH in + locale=et_EE + language=et + case "${SUITE}" in + reproducible_buildflags=+all + extra_deb_build_options= + case "${SRCPACKAGE}" in + cat + echo BUILDDIR=/build/reproducible-path + '[' genometester = debian-installer -o genometester = debian-installer-netboot-images ']' + pbuilder_options=() + local pbuilder_options + DEBBUILDOPTS=-b + BINARYTARGET= + '[' genometester = u-boot ']' + case "${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.bCOhFgRG/pbuilderrc_UzD3 --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.bCOhFgRG/b2 --logfile b2/build.log genometester_4.0+git20200511.91cecb5+dfsg-1.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: Sat Feb 22 15:05:29 +14 2025 I: pbuilder-time-stamp: 1740186329 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 [genometester_4.0+git20200511.91cecb5+dfsg-1.dsc] I: copying [./genometester_4.0+git20200511.91cecb5+dfsg.orig.tar.xz] I: copying [./genometester_4.0+git20200511.91cecb5+dfsg-1.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./genometester_4.0+git20200511.91cecb5+dfsg-1.dsc: unsupported subcommand dpkg-source: info: extracting genometester in genometester-4.0+git20200511.91cecb5+dfsg dpkg-source: info: unpacking genometester_4.0+git20200511.91cecb5+dfsg.orig.tar.xz dpkg-source: info: unpacking genometester_4.0+git20200511.91cecb5+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying add_debug_symbols.patch dpkg-source: info: applying hardening.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2769839/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 22 01:05 /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/2769839/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/2769839/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=56ff876652dc468594c1ed3dc30802c0 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=2769839 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.bCOhFgRG/pbuilderrc_UzD3 --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.bCOhFgRG/b2 --logfile b2/build.log genometester_4.0+git20200511.91cecb5+dfsg-1.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/2769839/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) 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. 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} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libicu72{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{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: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 30 newly installed, 0 to remove and 0 not upgraded. Need to get 20.6 MB of archives. After unpacking 77.9 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] Fetched 20.6 MB in 1s (22.6 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. 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) ... Setting up libpipeline1:amd64 (1.5.8-1) ... Setting up libicu72:amd64 (72.1-6) ... Setting up bsdextrautils (2.40.4-4) ... Setting up libmagic-mgc (1:5.45-3+b1) ... 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 autotools-dev (20220109.1) ... Setting up libunistring5:amd64 (1.3-1) ... Setting up autopoint (0.23.1-1) ... Setting up autoconf (2.72-3) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libuchardet0:amd64 (0.0.8-1+b2) ... 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 intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.14.1-2) ... Setting up groff-base (1.23.0-7) ... 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/2769839/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for unstable I: user script /srv/workspace/pbuilder/2769839/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/ && 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 > ../genometester_4.0+git20200511.91cecb5+dfsg-1_source.changes dpkg-buildpackage: info: source package genometester dpkg-buildpackage: info: source version 4.0+git20200511.91cecb5+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Steffen Moeller dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --sourcedirectory=src debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg' dh_auto_clean cd src && make -j20 clean make[2]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' rm -f *.o glistmaker glistquery glistcompare make[2]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' rm -f src/gdistribution src/gmer_caller src/gmer_counter make[1]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg' dh_autoreconf_clean -O--sourcedirectory=src dh_clean -O--sourcedirectory=src debian/rules binary dh binary --sourcedirectory=src dh_update_autotools_config -O--sourcedirectory=src dh_autoreconf -O--sourcedirectory=src dh_auto_configure -O--sourcedirectory=src debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg' dh_auto_build cd src && make -j20 "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' gcc glistmaker.c common.c common.h fasta.c fasta.h wordtable.c wordtable.h wordmap.c wordmap.h buffer.c buffer.h sequence.c sequence.h sequence-file.c sequence-file.h queue.c queue.h utils.c utils.h -o glistmaker -lm -lpthread -lrt -g -O2 -ffile-prefix-map=/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I. -O3 -g -Wall -Wl,-z,relro -Wl,-z,now gcc glistquery.c wordtable.c wordtable.h wordmap.c wordmap.h fasta.c fasta.h buffer.c buffer.h sequence.c sequence.h sequence-file.c sequence-file.h common.c common.h queue.c queue.h utils.c utils.h -o glistquery -lm -lpthread -lrt -g -O2 -ffile-prefix-map=/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I. -O3 -g -Wall -Wl,-z,relro -Wl,-z,now gcc glistcompare.c wordtable.c wordmap.c fasta.c buffer.c sequence.c sequence-file.c sequence-file.h common.c queue.c queue.h utils.c -o glistcompare -lm -lpthread -lrt -g -O2 -ffile-prefix-map=/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I. -O3 -g -Wall -Wl,-z,relro -Wl,-z,now glistmaker.c: In function ‘process’: glistmaker.c:380:33: warning: ‘t’ may be used uninitialized [-Wmaybe-uninitialized] 380 | wordtable_build_filename (t[0], c, 1024, outputname); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ glistmaker.c:373:44: note: ‘t’ declared here 373 | wordtable *t[MAX_MERGED_TABLES]; | ^ make[2]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' dh_auto_build -- gmer_counter cd src && make -j20 "INSTALL=install --strip-program=true" gmer_counter make[2]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' gcc gmer_counter.c index.c index.h trie.c trie.h wordmap.c wordmap.h sequence.c sequence.h sequence-file.c sequence-file.h wordtable.c wordtable.h fasta.c fasta.h thread-pool.c thread-pool.h queue.c queue.h utils.c utils.h database.c database.h -o gmer_counter -lm -lpthread -lrt -g -O2 -ffile-prefix-map=/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I. -O3 -g -Wall -Wl,-z,relro -Wl,-z,now -Wall make[2]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' dh_auto_build -- gmer_caller cd src && make -j20 "INSTALL=install --strip-program=true" gmer_caller make[2]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' gcc binomial.c binomial.h genotypes.c genotypes.h simplex.c simplex.h thread-pool.c thread-pool.h utils.c utils.h gmer_caller.c -o gmer_caller -lm -lpthread -lrt -g -O2 -ffile-prefix-map=/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I. -O3 -g -Wall -Wl,-z,relro -Wl,-z,now -Wall gmer_caller.c: In function ‘main’: gmer_caller.c:495:16: warning: variable ‘coverage_specified’ set but not used [-Wunused-but-set-variable] 495 | unsigned int coverage_specified = 0; | ^~~~~~~~~~~~~~~~~~ gmer_caller.c: At top level: gmer_caller.c:903:1: warning: ‘logL2’ defined but not used [-Wunused-function] 903 | logL2 (const float arg[], unsigned int count, unsigned int tulem2[], unsigned int katvus2[]) | ^~~~~ gmer_caller.c: In function ‘parse_calls’: gmer_caller.c:167:24: warning: ‘best_a’ may be used uninitialized [-Wmaybe-uninitialized] 167 | calls[i].counts[0] = best_a; | ~~~~~~~~~~~~~~~~~~~^~~~~~~~ gmer_caller.c:150:9: note: ‘best_a’ was declared here 150 | int best_a, best_b, best_delta; | ^~~~~~ gmer_caller.c:168:24: warning: ‘best_b’ may be used uninitialized [-Wmaybe-uninitialized] 168 | calls[i].counts[1] = best_b; | ~~~~~~~~~~~~~~~~~~~^~~~~~~~ gmer_caller.c:150:17: note: ‘best_b’ was declared here 150 | int best_a, best_b, best_delta; | ^~~~~~ gmer_caller.c: In function ‘main’: gmer_caller.c:785:9: warning: ‘calls_x’ may be used uninitialized [-Wmaybe-uninitialized] 785 | print_genotypes (lines, calls_x, nx, params, pB, (non_canonical) ? 0 : 2, prob_cutoff, alternatives, nthreads); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gmer_caller.c:509:22: note: ‘calls_x’ was declared here 509 | SNPCall *calls_a, *calls_x, *calls_y; | ^~~~~~~ make[2]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' dh_auto_build -- gdistribution cd src && make -j20 "INSTALL=install --strip-program=true" gdistribution make[2]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' gcc gdistribution.c wordtable.c wordmap.c fasta.c buffer.c sequence.c sequence-file.c sequence-file.h common.c queue.c queue.h utils.c -o gdistribution -lm -lpthread -lrt -g -O2 -ffile-prefix-map=/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I. -O3 -g -Wall -Wl,-z,relro -Wl,-z,now gdistribution.c: In function ‘main’: gdistribution.c:55:9: warning: unused variable ‘freqs’ [-Wunused-variable] 55 | Freq *freqs; | ^~~~~ make[2]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' make[1]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg' dh_auto_test -O--sourcedirectory=src create-stamp debian/debhelper-build-stamp dh_testroot -O--sourcedirectory=src dh_prep -O--sourcedirectory=src dh_auto_install --destdir=debian/genometester/ -O--sourcedirectory=src dh_install -O--sourcedirectory=src dh_installdocs -O--sourcedirectory=src dh_installchangelogs -O--sourcedirectory=src dh_installman -O--sourcedirectory=src dh_installinit -O--sourcedirectory=src dh_installsystemduser -O--sourcedirectory=src dh_perl -O--sourcedirectory=src dh_link -O--sourcedirectory=src dh_strip_nondeterminism -O--sourcedirectory=src dh_compress -O--sourcedirectory=src dh_fixperms -O--sourcedirectory=src dh_missing -O--sourcedirectory=src dh_dwz -O--sourcedirectory=src dh_strip -O--sourcedirectory=src dh_makeshlibs -O--sourcedirectory=src dh_shlibdeps -O--sourcedirectory=src dh_installdeb -O--sourcedirectory=src dh_gencontrol -O--sourcedirectory=src dh_md5sums -O--sourcedirectory=src dh_builddeb -O--sourcedirectory=src dpkg-deb: building package 'genometester' in '../genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.deb'. dpkg-deb: building package 'genometester-dbgsym' in '../genometester-dbgsym_4.0+git20200511.91cecb5+dfsg-1_amd64.deb'. dpkg-genbuildinfo --build=binary -O../genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.buildinfo dpkg-genchanges --build=binary -O../genometester_4.0+git20200511.91cecb5+dfsg-1_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: including full source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/2769839/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/2769839/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/2769839 and its subdirectories I: Current time: Sat Feb 22 15:09:28 +14 2025 I: pbuilder-time-stamp: 1740186568 + false + set +x Sat Feb 22 01:09:28 UTC 2025 I: Signing ./b2/genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.buildinfo as genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.buildinfo.asc Sat Feb 22 01:09:28 UTC 2025 I: Signed ./b2/genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.buildinfo as ./b2/genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.buildinfo.asc Sat Feb 22 01:09:28 UTC 2025 - build #2 for genometester/unstable/amd64 on ionos1-amd64 done. Starting cleanup. All cleanup done. Sat Feb 22 01:09:28 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-LLyDIawJ, removing. /srv/reproducible-results/rbuild-debian/r-b-build.bCOhFgRG: total 44 drwxr-xr-x 2 jenkins jenkins 4096 Feb 22 01:05 b1 drwxr-xr-x 2 jenkins jenkins 4096 Feb 22 01:09 b2 -rw-r--r-- 1 jenkins jenkins 2224 May 17 2020 genometester_4.0+git20200511.91cecb5+dfsg-1.dsc -rw------- 1 jenkins jenkins 29472 Feb 22 01:05 rbuildlog.4FI69qF /srv/reproducible-results/rbuild-debian/r-b-build.bCOhFgRG/b1: total 972 -rw-r--r-- 1 jenkins jenkins 25709 Feb 22 01:05 build.log -rw-r--r-- 1 jenkins jenkins 284744 Feb 22 01:05 genometester-dbgsym_4.0+git20200511.91cecb5+dfsg-1_amd64.deb -rw-r--r-- 1 jenkins jenkins 232860 Feb 22 01:05 genometester_4.0+git20200511.91cecb5+dfsg-1.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2224 Feb 22 01:05 genometester_4.0+git20200511.91cecb5+dfsg-1.dsc -rw-r--r-- 1 jenkins jenkins 5101 Feb 22 01:05 genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 5983 Feb 22 01:05 genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 2035 Feb 22 01:05 genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.changes -rw-r--r-- 1 jenkins jenkins 308976 Feb 22 01:05 genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.deb -rw-r--r-- 1 jenkins jenkins 2221 Feb 22 01:05 genometester_4.0+git20200511.91cecb5+dfsg-1_source.changes -rw-r--r-- 1 jenkins jenkins 87872 Feb 22 01:05 genometester_4.0+git20200511.91cecb5+dfsg.orig.tar.xz /srv/reproducible-results/rbuild-debian/r-b-build.bCOhFgRG/b2: total 956 -rw-r--r-- 1 jenkins jenkins 27630 Feb 22 01:09 build.log -rw-r--r-- 1 jenkins jenkins 284744 Feb 22 01:09 genometester-dbgsym_4.0+git20200511.91cecb5+dfsg-1_amd64.deb -rw-r--r-- 1 jenkins jenkins 232860 Feb 22 01:09 genometester_4.0+git20200511.91cecb5+dfsg-1.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2224 Feb 22 01:09 genometester_4.0+git20200511.91cecb5+dfsg-1.dsc -rw-r--r-- 1 jenkins jenkins 5092 Feb 22 01:09 genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 5974 Feb 22 01:09 genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 2035 Feb 22 01:09 genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.changes -rw-r--r-- 1 jenkins jenkins 308976 Feb 22 01:09 genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.deb -rw-r--r-- 1 jenkins jenkins 2221 Feb 22 01:09 genometester_4.0+git20200511.91cecb5+dfsg-1_source.changes -rw-r--r-- 1 jenkins jenkins 87872 Feb 22 01:09 genometester_4.0+git20200511.91cecb5+dfsg.orig.tar.xz Sat Feb 22 01:09:29 UTC 2025 I: Deleting $TMPDIR on ionos1-amd64.debian.net. Sat Feb 22 01:09:30 UTC 2025 I: genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.changes: Format: 1.8 Date: Sun, 17 May 2020 20:06:55 +0200 Source: genometester Binary: genometester genometester-dbgsym Architecture: amd64 Version: 4.0+git20200511.91cecb5+dfsg-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Steffen Moeller Description: genometester - toolkit for performing set operations on k-mer lists Changes: genometester (4.0+git20200511.91cecb5+dfsg-1) unstable; urgency=medium . * Team upload. * New upstream version * Standards-Version: 4.5.0 (routine-update) * debhelper-compat 12 (routine-update) * Add salsa-ci file (routine-update) * Rules-Requires-Root: no (routine-update) * Set upstream metadata fields: Bug-Database, Bug-Submit, Repository, Repository-Browse. (routine-update) * Added d/TODO to indicate missing man page (also a lintian warning) * Improved clean. Checksums-Sha1: a5fa1d71e9a90f5f31d8f3f39b50e6aa193748d9 284744 genometester-dbgsym_4.0+git20200511.91cecb5+dfsg-1_amd64.deb bfefbcb9290efc1d4f76151a780a72a9919a6347 5101 genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.buildinfo 6cc9e9cfaf86f0a4daaf0987350e1d3137baca0a 308976 genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.deb Checksums-Sha256: 825b75f3befaf9f9a0be0ad77ac2186aaf3e99ba3608dfb4dcb3103b9c2f2771 284744 genometester-dbgsym_4.0+git20200511.91cecb5+dfsg-1_amd64.deb 9dd1f571d45c98352e4210ffee4bc58240116feba4b919c908adc309a12ea162 5101 genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.buildinfo 6f84fdbefd9ae1a5e9c13ffdcca2e145b6800fd2874d25a6a29afb80a62c8043 308976 genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.deb Files: c487411f6002b288d68598d575f36dde 284744 debug optional genometester-dbgsym_4.0+git20200511.91cecb5+dfsg-1_amd64.deb 141929cea8cb86bcad0f9ef32e2832fa 5101 science optional genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.buildinfo 181663c04591cced1c8fd26ac0a0e33d 308976 science optional genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.deb removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/genometester_4.0+git20200511.91cecb5+dfsg-1.rbuild.log' removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/genometester_4.0+git20200511.91cecb5+dfsg-1.rbuild.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/unstable/amd64/genometester_4.0+git20200511.91cecb5+dfsg-1.build1.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/unstable/amd64/genometester_4.0+git20200511.91cecb5+dfsg-1.build2.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/buildinfo/unstable/amd64/genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.buildinfo' removed '/var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/amd64/genometester_4.0+git20200511.91cecb5+dfsg-1.diff.gz' Diff of the two buildlogs: -- --- b1/build.log 2025-02-22 01:05:26.867415569 +0000 +++ b2/build.log 2025-02-22 01:09:29.392406087 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Thu Mar 26 19:27:28 -12 2026 -I: pbuilder-time-stamp: 1774596448 +I: Current time: Sat Feb 22 15:05:29 +14 2025 +I: pbuilder-time-stamp: 1740186329 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -25,52 +25,84 @@ dpkg-source: info: applying hardening.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/4150220/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/2769839/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 22 01:05 /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/2769839/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/2769839/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='cb3631dc5d164d94b5212b3162e73260' - 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='4150220' - PS1='# ' - PS2='> ' + INVOCATION_ID=56ff876652dc468594c1ed3dc30802c0 + 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=2769839 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.bCOhFgRG/pbuilderrc_ppCc --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.bCOhFgRG/b1 --logfile b1/build.log genometester_4.0+git20200511.91cecb5+dfsg-1.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.bCOhFgRG/pbuilderrc_UzD3 --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.bCOhFgRG/b2 --logfile b2/build.log genometester_4.0+git20200511.91cecb5+dfsg-1.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/4150220/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/2769839/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -136,7 +168,7 @@ 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] -Fetched 20.6 MB in 3s (7822 kB/s) +Fetched 20.6 MB in 1s (22.6 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.) @@ -271,7 +303,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/ && 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 > ../genometester_4.0+git20200511.91cecb5+dfsg-1_source.changes +I: user script /srv/workspace/pbuilder/2769839/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/2769839/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/ && 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 > ../genometester_4.0+git20200511.91cecb5+dfsg-1_source.changes dpkg-buildpackage: info: source package genometester dpkg-buildpackage: info: source version 4.0+git20200511.91cecb5+dfsg-1 dpkg-buildpackage: info: source distribution unstable @@ -283,7 +319,7 @@ debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg' dh_auto_clean - cd src && make -j42 clean + cd src && make -j20 clean make[2]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' rm -f *.o glistmaker glistquery glistcompare make[2]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' @@ -299,7 +335,7 @@ debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg' dh_auto_build - cd src && make -j42 "INSTALL=install --strip-program=true" + cd src && make -j20 "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' gcc glistmaker.c common.c common.h fasta.c fasta.h wordtable.c wordtable.h wordmap.c wordmap.h buffer.c buffer.h sequence.c sequence.h sequence-file.c sequence-file.h queue.c queue.h utils.c utils.h -o glistmaker -lm -lpthread -lrt -g -O2 -ffile-prefix-map=/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I. -O3 -g -Wall -Wl,-z,relro -Wl,-z,now gcc glistquery.c wordtable.c wordtable.h wordmap.c wordmap.h fasta.c fasta.h buffer.c buffer.h sequence.c sequence.h sequence-file.c sequence-file.h common.c common.h queue.c queue.h utils.c utils.h -o glistquery -lm -lpthread -lrt -g -O2 -ffile-prefix-map=/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I. -O3 -g -Wall -Wl,-z,relro -Wl,-z,now @@ -313,12 +349,12 @@ | ^ make[2]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' dh_auto_build -- gmer_counter - cd src && make -j42 "INSTALL=install --strip-program=true" gmer_counter + cd src && make -j20 "INSTALL=install --strip-program=true" gmer_counter make[2]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' gcc gmer_counter.c index.c index.h trie.c trie.h wordmap.c wordmap.h sequence.c sequence.h sequence-file.c sequence-file.h wordtable.c wordtable.h fasta.c fasta.h thread-pool.c thread-pool.h queue.c queue.h utils.c utils.h database.c database.h -o gmer_counter -lm -lpthread -lrt -g -O2 -ffile-prefix-map=/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I. -O3 -g -Wall -Wl,-z,relro -Wl,-z,now -Wall make[2]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' dh_auto_build -- gmer_caller - cd src && make -j42 "INSTALL=install --strip-program=true" gmer_caller + cd src && make -j20 "INSTALL=install --strip-program=true" gmer_caller make[2]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' gcc binomial.c binomial.h genotypes.c genotypes.h simplex.c simplex.h thread-pool.c thread-pool.h utils.c utils.h gmer_caller.c -o gmer_caller -lm -lpthread -lrt -g -O2 -ffile-prefix-map=/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I. -O3 -g -Wall -Wl,-z,relro -Wl,-z,now -Wall gmer_caller.c: In function ‘main’: @@ -351,7 +387,7 @@ | ^~~~~~~ make[2]: Leaving directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' dh_auto_build -- gdistribution - cd src && make -j42 "INSTALL=install --strip-program=true" gdistribution + cd src && make -j20 "INSTALL=install --strip-program=true" gdistribution make[2]: Entering directory '/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg/src' gcc gdistribution.c wordtable.c wordmap.c fasta.c buffer.c sequence.c sequence-file.c sequence-file.h common.c queue.c queue.h utils.c -o gdistribution -lm -lpthread -lrt -g -O2 -ffile-prefix-map=/build/reproducible-path/genometester-4.0+git20200511.91cecb5+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -I. -O3 -g -Wall -Wl,-z,relro -Wl,-z,now gdistribution.c: In function ‘main’: @@ -394,12 +430,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/2769839/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/2769839/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/4150220 and its subdirectories -I: Current time: Thu Mar 26 19:28:26 -12 2026 -I: pbuilder-time-stamp: 1774596506 +I: removing directory /srv/workspace/pbuilder/2769839 and its subdirectories +I: Current time: Sat Feb 22 15:09:28 +14 2025 +I: pbuilder-time-stamp: 1740186568 Compressing the 2nd log... /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/amd64/genometester_4.0+git20200511.91cecb5+dfsg-1.diff: 72.9% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/amd64/genometester_4.0+git20200511.91cecb5+dfsg-1.diff.gz b2/build.log: 76.7% -- replaced with stdout Compressing the 1st log... b1/build.log: 77.6% -- replaced with stdout Sat Feb 22 01:09:31 UTC 2025 I: diffoscope 288 will be used to compare the two builds: ++ date -u +%s + DIFFOSCOPE_STAMP=/var/log/reproducible-builds/diffoscope_stamp_genometester_unstable_amd64_1740186571 + touch /var/log/reproducible-builds/diffoscope_stamp_genometester_unstable_amd64_1740186571 + RESULT=0 + systemd-run '--description=diffoscope on genometester/4.0+git20200511.91cecb5+dfsg-1 in unstable/amd64' --slice=rb-build-diffoscope.slice -u rb-diffoscope-amd64_2-32557 '--property=SuccessExitStatus=1 124' --user --send-sighup --pipe --wait -E TMPDIR timeout 155m nice schroot --directory /srv/reproducible-results/rbuild-debian/r-b-build.bCOhFgRG --run-session -c jenkins-reproducible-unstable-diffoscope-c831493f-f763-4f8f-b910-344e8ba5e2dd -- sh -c 'export TMPDIR=/srv/reproducible-results/rbuild-debian/r-b-build.bCOhFgRG/dbd-tmp-xCY656J ; timeout 150m diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.bCOhFgRG/genometester_4.0+git20200511.91cecb5+dfsg-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.bCOhFgRG/genometester_4.0+git20200511.91cecb5+dfsg-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.bCOhFgRG/genometester_4.0+git20200511.91cecb5+dfsg-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.bCOhFgRG/b1/genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.bCOhFgRG/b2/genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.changes' + false + set +x Running as unit: rb-diffoscope-amd64_2-32557.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.bCOhFgRG/genometester_4.0+git20200511.91cecb5+dfsg-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.bCOhFgRG/genometester_4.0+git20200511.91cecb5+dfsg-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.bCOhFgRG/genometester_4.0+git20200511.91cecb5+dfsg-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.bCOhFgRG/b1/genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.bCOhFgRG/b2/genometester_4.0+git20200511.91cecb5+dfsg-1_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: 217ms CPU time consumed: 219ms _ _ __ _ ___ _ __ ___ _ __ ___ ___| |_ ___ ___| |_ ___ _ __ / _` |/ _ \ '_ \ / _ \| '_ ` _ \ / _ \ __/ _ \/ __| __/ _ \ '__| | (_| | __/ | | | (_) | | | | | | __/ || __/\__ \ || __/ | \__, |\___|_| |_|\___/|_| |_| |_|\___|\__\___||___/\__\___|_| |___/ Sat Feb 22 01:09:31 UTC 2025 I: diffoscope 288 found no differences in the changes files, and a .buildinfo file also exists. Sat Feb 22 01:09:31 UTC 2025 I: genometester from unstable built successfully and reproducibly on amd64. INSERT 0 1 INSERT 0 1 DELETE 1 [2025-02-22 01:09:32] INFO: Starting at 2025-02-22 01:09:32.145037 [2025-02-22 01:09:32] INFO: Generating the pages of 1 package(s) [2025-02-22 01:09:32] CRITICAL: https://tests.reproducible-builds.org/debian/unstable/amd64/genometester didn't produce a buildlog, even though it has been built. [2025-02-22 01:09:32] INFO: Finished at 2025-02-22 01:09:32.643224, took: 0:00:00.498193 Sat Feb 22 01:09:32 UTC 2025 - successfully updated the database and updated https://tests.reproducible-builds.org/debian/rb-pkg/unstable/amd64/genometester.html Sat Feb 22 01:09:32 UTC 2025 I: Submitting .buildinfo files to external archives: Sat Feb 22 01:09:32 UTC 2025 I: Submitting 8.0K b1/genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.buildinfo.asc https://buildinfo.debian.net/bfefbcb9290efc1d4f76151a780a72a9919a6347/genometester_4.0+git20200511.91cecb5+dfsg-1_amd64 Sat Feb 22 01:09:33 UTC 2025 I: Submitting 8.0K b2/genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.buildinfo.asc https://buildinfo.debian.net/544436bde1ea6a5a68b263ca0e1779e35ef3760f/genometester_4.0+git20200511.91cecb5+dfsg-1_amd64 Sat Feb 22 01:09:35 UTC 2025 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sat Feb 22 01:09:35 UTC 2025 I: Done submitting .buildinfo files. Sat Feb 22 01:09:35 UTC 2025 I: Removing signed genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.buildinfo.asc files: removed './b1/genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.buildinfo.asc' removed './b2/genometester_4.0+git20200511.91cecb5+dfsg-1_amd64.buildinfo.asc' 1740186575 amd64 unstable genometester Starting cleanup. /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/genometester_4.0+git20200511.91cecb5+dfsg-1.rbuild.log: 74.3% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/genometester_4.0+git20200511.91cecb5+dfsg-1.rbuild.log.gz [2025-02-22 01:09:35] INFO: Starting at 2025-02-22 01:09:35.711303 [2025-02-22 01:09:35] INFO: Generating the pages of 1 package(s) [2025-02-22 01:09:36] INFO: Finished at 2025-02-22 01:09:36.182620, took: 0:00:00.471326 All cleanup done. Sat Feb 22 01:09:36 UTC 2025 - total duration: 0h 5m 18s. Sat Feb 22 01:09:36 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-I74Tyq7T, removing. Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 5min 22.519s CPU time consumed: 6.959s