Running as unit: rb-build-amd64_6-33340.service ==================================================================================== Sat Feb 22 01:16:43 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job reproducible_builder_amd64_6) on jenkins, called using "ionos5-amd64 ionos11-amd64" as arguments. Sat Feb 22 01:16:43 UTC 2025 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-Qcq9QRsW" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Sat Feb 22 01:16:43 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos5-amd64.debian.net is marked as down. Sat Feb 22 01:16:43 UTC 2025 - checking via ssh if ionos5-amd64.debian.net is up. removed '/tmp/read-only-fs-test-wfbbrW' Sat Feb 22 01:16:44 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos11-amd64.debian.net is marked as down. Sat Feb 22 01:16:44 UTC 2025 - checking via ssh if ionos11-amd64.debian.net is up. removed '/tmp/read-only-fs-test-9TtDJ8' ok, let's check if cct is building anywhere yet… ok, cct is not building anywhere… UPDATE 1 ============================================================================= Initialising reproducibly build of cct in unstable on amd64 on jenkins now. 1st build will be done on ionos5-amd64.debian.net. 2nd build will be done on ionos11-amd64.debian.net. ============================================================================= Sat Feb 22 01:16:54 UTC 2025 I: starting to build cct/unstable/amd64 on jenkins on '2025-02-22 01:16' Sat Feb 22 01:16:54 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_6/33340/console.log 1740187014 amd64 unstable cct Sat Feb 22 01:16:54 UTC 2025 I: Downloading source for unstable/cct=1:1.0.3-1 --2025-02-22 01:16:54-- http://deb.debian.org/debian/pool/main/c/cct/cct_1.0.3-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 1997 (2.0K) [text/prs.lines.tag] Saving to: ‘cct_1.0.3-1.dsc’ 0K . 100% 272M=0s 2025-02-22 01:16:54 (272 MB/s) - ‘cct_1.0.3-1.dsc’ saved [1997/1997] --2025-02-22 01:16:54-- http://deb.debian.org/debian/pool/main/c/cct/cct_1.0.3-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 1997 (2.0K) [text/prs.lines.tag] Saving to: ‘cct_1.0.3-1.dsc’ 0K . 100% 272M=0s 2025-02-22 01:16:54 (272 MB/s) - ‘cct_1.0.3-1.dsc’ saved [1997/1997] Sat Feb 22 01:16:54 UTC 2025 I: cct_1.0.3-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: cct Binary: cct, cct-examples Architecture: all Version: 1:1.0.3-1 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: http://stothard.afns.ualberta.ca/downloads/CCT/ Standards-Version: 4.6.0 Vcs-Browser: https://salsa.debian.org/med-team/cct Vcs-Git: https://salsa.debian.org/med-team/cct.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), debhelper Package-List: cct deb science optional arch=all cct-examples deb science optional arch=all Checksums-Sha1: 588f561c9cc4faaad979fbf1c225b681d5f978e0 81734736 cct_1.0.3.orig.tar.xz 06ace14e2579172379e7318292881d5a2ca8af49 11652 cct_1.0.3-1.debian.tar.xz Checksums-Sha256: e0f4d56ccf25843530e9386b2daab97ea02bd00b60df348082be3b921dd8edc7 81734736 cct_1.0.3.orig.tar.xz c04e1b0c8f90dbec3a39d0551f4e45ffd07809d1feb04fee0818c7ae204c6159 11652 cct_1.0.3-1.debian.tar.xz Files: 8d4d1b9f70e70a6d01e3d8d8b90c8eda 81734736 cct_1.0.3.orig.tar.xz 3f88301874c53e545f9585c61dd1dcd9 11652 cct_1.0.3-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmHkNZYRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtEJLA/+LLgT+bQwoSPjRyaAwhB7F4X2NFCZlp7+ D3l1ruKpT5oJXjpORgW4cknpOuaVH+VvZLxCMMNb9/E231ZqvahFOKf1sC0Xv4KN v5UkVaFEmHOKhAnJKwEGhBgha9hnG9i17d9HAJ7hyZ3f/CILAZMjVR1btmjUwK26 Qev/j+J5fn5YHaS2U/iN9M38xD+It0kQKfKpgbapHJAmwwazhNLJIVDPmWNn4uE2 5SLLI+Vd5hll5MqT0uuMCcLDq3EYrNMAsso8I29aR7i39QmgrU1FDvQDQpi7Vd7c mzgJwVFoCEM22qxyysniNbejffYinSuajOs/OULGmN0dJi/FhM7cNAVqb+Ftf13q ihqogWXfF7x0Sbf44RT6ZFbxrXSrK1FnimyLj/8TgHh15oKclU+lRBH9/mr4x9Qa aYPATTVw0SdkpFjEBC/990AZHZtvjHIaWOI0s8eM/78tD+HSIKPDXVuDHCeYxQfm kwP0YWg3lL9uBtZD1OJODAKFAJI9V+ptv3vJwZvUo/R7JzatsUVZCwN73MCdX40I Z+62PqMZvrnqoAQAiv5zN/oBgL4w5YNKwTvpc+qd6NOxIdgbmxpt51fa2rUMVrpL jMH+wwOG0xBrsdSX4DOKDd3n1XqiEm/hHe1WEgRii+ZBrVIpyR2p9TAifIc8rguo vWFXn0Ljm4Q= =Vczx -----END PGP SIGNATURE----- Sat Feb 22 01:16:54 UTC 2025 I: Checking whether the package is not for us Sat Feb 22 01:16:54 UTC 2025 I: Starting 1st build on remote node ionos5-amd64.debian.net. Sat Feb 22 01:16:54 UTC 2025 I: Preparing to do remote build '1' on ionos5-amd64.debian.net. Sat Feb 22 01:16:54 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos5-amd64.debian.net is marked as down. Sat Feb 22 01:16:54 UTC 2025 - checking via ssh if ionos5-amd64.debian.net is up. removed '/tmp/read-only-fs-test-uxqpAE' ==================================================================================== Fri Mar 27 07:39:55 UTC 2026 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on ionos5-amd64, called using "1 cct unstable /srv/reproducible-results/rbuild-debian/r-b-build.Oj8iD5xP 1:1.0.3-1" as arguments. Fri Mar 27 07:39:55 UTC 2026 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-qL87HW3M" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Fri Mar 27 07:39:55 UTC 2026 I: Downloading source for unstable/cct=1:1.0.3-1 Reading package lists... NOTICE: 'cct' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/cct.git Please use: git clone https://salsa.debian.org/med-team/cct.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 81.7 MB of source archives. Get:1 http://deb.debian.org/debian unstable/main cct 1:1.0.3-1 (dsc) [1997 B] Get:2 http://deb.debian.org/debian unstable/main cct 1:1.0.3-1 (tar) [81.7 MB] Get:3 http://deb.debian.org/debian unstable/main cct 1:1.0.3-1 (diff) [11.7 kB] Fetched 81.7 MB in 2s (38.8 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'cct' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/cct.git Please use: git clone https://salsa.debian.org/med-team/cct.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 81.7 MB of source archives. Get:1 http://deb.debian.org/debian unstable/main cct 1:1.0.3-1 (dsc) [1997 B] Get:2 http://deb.debian.org/debian unstable/main cct 1:1.0.3-1 (tar) [81.7 MB] Get:3 http://deb.debian.org/debian unstable/main cct 1:1.0.3-1 (diff) [11.7 kB] Fetched 81.7 MB in 2s (38.8 MB/s) Download complete and in download only mode ============================================================================= Building cct in unstable on amd64 on ionos5-amd64 now. Date: Fri Mar 27 07:39:58 UTC 2026 Date UTC: Fri Mar 27 07:39:58 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 19:39:58 -12 2026 I: pbuilder-time-stamp: 1774597198 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 [cct_1.0.3-1.dsc] I: copying [./cct_1.0.3.orig.tar.xz] I: copying [./cct_1.0.3-1.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./cct_1.0.3-1.dsc: unsupported subcommand dpkg-source: info: extracting cct in cct-1.0.3 dpkg-source: info: unpacking cct_1.0.3.orig.tar.xz dpkg-source: info: unpacking cct_1.0.3-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying cgview_path.patch dpkg-source: info: applying testscripts.patch dpkg-source: info: applying fix_cgview_path.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/18653/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='3d6701fde3a14f50a355624dbbb84d5a' 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='18653' 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.Oj8iD5xP/pbuilderrc_iUMZ --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.Oj8iD5xP/b1 --logfile b1/build.log cct_1.0.3-1.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/18653/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 (= 13), debhelper 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 (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on debhelper; however: Package debhelper 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 (34.2 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: Running cd /build/reproducible-path/cct-1.0.3/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../cct_1.0.3-1_source.changes dpkg-buildpackage: info: source package cct dpkg-buildpackage: info: source version 1:1.0.3-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf create-stamp debian/debhelper-build-stamp dh_prep debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/cct-1.0.3' dh_install mkdir -p debian/cct/usr/bin for scr in debian/cct/usr/share/cct/scripts/*.sh ; do \ binscr=`basename ${scr} .sh` ; \ ln -s /usr/share/cct/scripts/generic debian/cct/usr/bin/${binscr} ; \ done for scr in debian/cct/usr/share/cct/scripts/*.pl ; do \ binscr=`basename ${scr} .pl` ; \ ln -s /usr/share/cct/scripts/generic debian/cct/usr/bin/${binscr} ; \ done ln -s /etc/cct debian/cct/usr/share/cct/conf # Move "hidden" examples into example package for sample in `find debian -type d \( -name "sample_output" -o -name "test_input" \)` ; do \ base=`dirname ${sample} | sed 's#debian/cct#debian/cct-examples#'` ; \ mkdir -p ${base} ; \ mv ${sample} ${base} ; \ done for pl in `grep -Rl '#!/usr/bin/env[[:space:]]\+perl' debian/*/usr/*` ; do \ sed -i '1s?^#!/usr/bin/env[[:space:]]\+perl?#!/usr/bin/perl?' ${pl} ; \ done grep: debian/cct/usr/bin/fetch_genome_by_accession: No such file or directory grep: debian/cct/usr/bin/fetch_all_refseq_bacterial_genomes: No such file or directory grep: debian/cct/usr/bin/process_test_projects: No such file or directory grep: debian/cct/usr/bin/remove_long_seqs: No such file or directory grep: debian/cct/usr/bin/ncbi_search: No such file or directory grep: debian/cct/usr/bin/redraw_maps: No such file or directory grep: debian/cct/usr/bin/fetch_refseq_bacterial_genomes_by_name: No such file or directory grep: debian/cct/usr/bin/remove_short_seqs: No such file or directory grep: debian/cct/usr/bin/check_env: No such file or directory grep: debian/cct/usr/bin/create_zoomed_maps: No such file or directory grep: debian/cct/usr/bin/build_blast_atlas_all_vs_all: No such file or directory grep: debian/cct/usr/bin/build_blast_atlas: No such file or directory grep: debian/cct/usr/bin/convert_vcf_to_features: No such file or directory grep: debian/cct/usr/bin/process_sample_projects: No such file or directory grep: debian/cct/usr/bin/fetch_all_refseq_chloroplast_genomes: No such file or directory grep: debian/cct/usr/bin/fetch_all_refseq_mitochondrial_genomes: No such file or directory grep: debian/cct/usr/bin/cgview_comparison_tool: No such file or directory grep: debian/cct/usr/bin/build_cog_db: No such file or directory grep: debian/cct/usr/share/cct/conf: No such file or directory make[1]: Leaving directory '/build/reproducible-path/cct-1.0.3' dh_installdocs dh_installchangelogs dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_installdeb dh_gencontrol dpkg-gencontrol: warning: Depends field of package cct-examples: substitution variable ${perl:Depends} used, but is not defined dh_md5sums dh_builddeb dpkg-deb: building package 'cct' in '../cct_1.0.3-1_all.deb'. dpkg-deb: building package 'cct-examples' in '../cct-examples_1.0.3-1_all.deb'. dpkg-genbuildinfo --build=binary -O../cct_1.0.3-1_amd64.buildinfo dpkg-genchanges --build=binary -O../cct_1.0.3-1_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/18653 and its subdirectories I: Current time: Thu Mar 26 19:41:24 -12 2026 I: pbuilder-time-stamp: 1774597284 Fri Mar 27 07:41:24 UTC 2026 I: Signing ./b1/cct_1.0.3-1_amd64.buildinfo as cct_1.0.3-1_amd64.buildinfo.asc Fri Mar 27 07:41:24 UTC 2026 I: Signed ./b1/cct_1.0.3-1_amd64.buildinfo as ./b1/cct_1.0.3-1_amd64.buildinfo.asc Fri Mar 27 07:41:24 UTC 2026 - build #1 for cct/unstable/amd64 on ionos5-amd64 done. Starting cleanup. All cleanup done. Fri Mar 27 07:41:24 UTC 2026 - reproducible_build.sh stopped running as /tmp/jenkins-script-qL87HW3M, removing. /srv/reproducible-results/rbuild-debian/r-b-build.Oj8iD5xP: total 16 drwxr-xr-x 2 jenkins jenkins 4096 Feb 22 01:18 b1 drwxr-xr-x 2 jenkins jenkins 4096 Feb 22 01:16 b2 -rw-r--r-- 1 jenkins jenkins 1997 Jan 16 2022 cct_1.0.3-1.dsc -rw------- 1 jenkins jenkins 3070 Feb 22 01:16 rbuildlog.kvQ2ooX /srv/reproducible-results/rbuild-debian/r-b-build.Oj8iD5xP/b1: total 156276 -rw-r--r-- 1 jenkins jenkins 19974 Feb 22 01:18 build.log -rw-r--r-- 1 jenkins jenkins 41893420 Feb 22 01:18 cct-examples_1.0.3-1_all.deb -rw-r--r-- 1 jenkins jenkins 11652 Feb 22 01:18 cct_1.0.3-1.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 1997 Feb 22 01:18 cct_1.0.3-1.dsc -rw-r--r-- 1 jenkins jenkins 36332456 Feb 22 01:18 cct_1.0.3-1_all.deb -rw-r--r-- 1 jenkins jenkins 4835 Feb 22 01:18 cct_1.0.3-1_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 5717 Feb 22 01:18 cct_1.0.3-1_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1435 Feb 22 01:18 cct_1.0.3-1_amd64.changes -rw-r--r-- 1 jenkins jenkins 1473 Feb 22 01:18 cct_1.0.3-1_source.changes -rw-r--r-- 1 jenkins jenkins 81734736 Feb 22 01:18 cct_1.0.3.orig.tar.xz /srv/reproducible-results/rbuild-debian/r-b-build.Oj8iD5xP/b2: total 0 Sat Feb 22 01:18:26 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 19:39:58 -12 2026 I: pbuilder-time-stamp: 1774597198 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 [cct_1.0.3-1.dsc] I: copying [./cct_1.0.3.orig.tar.xz] I: copying [./cct_1.0.3-1.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./cct_1.0.3-1.dsc: unsupported subcommand dpkg-source: info: extracting cct in cct-1.0.3 dpkg-source: info: unpacking cct_1.0.3.orig.tar.xz dpkg-source: info: unpacking cct_1.0.3-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying cgview_path.patch dpkg-source: info: applying testscripts.patch dpkg-source: info: applying fix_cgview_path.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/18653/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='3d6701fde3a14f50a355624dbbb84d5a' 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='18653' 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.Oj8iD5xP/pbuilderrc_iUMZ --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.Oj8iD5xP/b1 --logfile b1/build.log cct_1.0.3-1.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/18653/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 (= 13), debhelper 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 (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on debhelper; however: Package debhelper 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 (34.2 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: Running cd /build/reproducible-path/cct-1.0.3/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../cct_1.0.3-1_source.changes dpkg-buildpackage: info: source package cct dpkg-buildpackage: info: source version 1:1.0.3-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf create-stamp debian/debhelper-build-stamp dh_prep debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/cct-1.0.3' dh_install mkdir -p debian/cct/usr/bin for scr in debian/cct/usr/share/cct/scripts/*.sh ; do \ binscr=`basename ${scr} .sh` ; \ ln -s /usr/share/cct/scripts/generic debian/cct/usr/bin/${binscr} ; \ done for scr in debian/cct/usr/share/cct/scripts/*.pl ; do \ binscr=`basename ${scr} .pl` ; \ ln -s /usr/share/cct/scripts/generic debian/cct/usr/bin/${binscr} ; \ done ln -s /etc/cct debian/cct/usr/share/cct/conf # Move "hidden" examples into example package for sample in `find debian -type d \( -name "sample_output" -o -name "test_input" \)` ; do \ base=`dirname ${sample} | sed 's#debian/cct#debian/cct-examples#'` ; \ mkdir -p ${base} ; \ mv ${sample} ${base} ; \ done for pl in `grep -Rl '#!/usr/bin/env[[:space:]]\+perl' debian/*/usr/*` ; do \ sed -i '1s?^#!/usr/bin/env[[:space:]]\+perl?#!/usr/bin/perl?' ${pl} ; \ done grep: debian/cct/usr/bin/fetch_genome_by_accession: No such file or directory grep: debian/cct/usr/bin/fetch_all_refseq_bacterial_genomes: No such file or directory grep: debian/cct/usr/bin/process_test_projects: No such file or directory grep: debian/cct/usr/bin/remove_long_seqs: No such file or directory grep: debian/cct/usr/bin/ncbi_search: No such file or directory grep: debian/cct/usr/bin/redraw_maps: No such file or directory grep: debian/cct/usr/bin/fetch_refseq_bacterial_genomes_by_name: No such file or directory grep: debian/cct/usr/bin/remove_short_seqs: No such file or directory grep: debian/cct/usr/bin/check_env: No such file or directory grep: debian/cct/usr/bin/create_zoomed_maps: No such file or directory grep: debian/cct/usr/bin/build_blast_atlas_all_vs_all: No such file or directory grep: debian/cct/usr/bin/build_blast_atlas: No such file or directory grep: debian/cct/usr/bin/convert_vcf_to_features: No such file or directory grep: debian/cct/usr/bin/process_sample_projects: No such file or directory grep: debian/cct/usr/bin/fetch_all_refseq_chloroplast_genomes: No such file or directory grep: debian/cct/usr/bin/fetch_all_refseq_mitochondrial_genomes: No such file or directory grep: debian/cct/usr/bin/cgview_comparison_tool: No such file or directory grep: debian/cct/usr/bin/build_cog_db: No such file or directory grep: debian/cct/usr/share/cct/conf: No such file or directory make[1]: Leaving directory '/build/reproducible-path/cct-1.0.3' dh_installdocs dh_installchangelogs dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_installdeb dh_gencontrol dpkg-gencontrol: warning: Depends field of package cct-examples: substitution variable ${perl:Depends} used, but is not defined dh_md5sums dh_builddeb dpkg-deb: building package 'cct' in '../cct_1.0.3-1_all.deb'. dpkg-deb: building package 'cct-examples' in '../cct-examples_1.0.3-1_all.deb'. dpkg-genbuildinfo --build=binary -O../cct_1.0.3-1_amd64.buildinfo dpkg-genchanges --build=binary -O../cct_1.0.3-1_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/18653 and its subdirectories I: Current time: Thu Mar 26 19:41:24 -12 2026 I: pbuilder-time-stamp: 1774597284 Sat Feb 22 01:18:26 UTC 2025 I: 1st build successful. Starting 2nd build on remote node ionos11-amd64.debian.net. Sat Feb 22 01:18:26 UTC 2025 I: Preparing to do remote build '2' on ionos11-amd64.debian.net. Sat Feb 22 01:18:26 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos11-amd64.debian.net is marked as down. Sat Feb 22 01:18:26 UTC 2025 - checking via ssh if ionos11-amd64.debian.net is up. removed '/tmp/read-only-fs-test-jk6O4J' ==================================================================================== Sat Feb 22 01:18:28 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on ionos11-amd64, called using "2 cct unstable /srv/reproducible-results/rbuild-debian/r-b-build.Oj8iD5xP 1:1.0.3-1" as arguments. Sat Feb 22 01:18:28 UTC 2025 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-hlbXrz7U" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Sat Feb 22 01:18:28 UTC 2025 I: Downloading source for unstable/cct=1:1.0.3-1 Reading package lists... NOTICE: 'cct' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/cct.git Please use: git clone https://salsa.debian.org/med-team/cct.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 81.7 MB of source archives. Get:1 http://deb.debian.org/debian unstable/main cct 1:1.0.3-1 (dsc) [1997 B] Get:2 http://deb.debian.org/debian unstable/main cct 1:1.0.3-1 (tar) [81.7 MB] Get:3 http://deb.debian.org/debian unstable/main cct 1:1.0.3-1 (diff) [11.7 kB] Fetched 81.7 MB in 4s (21.1 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'cct' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/cct.git Please use: git clone https://salsa.debian.org/med-team/cct.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 81.7 MB of source archives. Get:1 http://deb.debian.org/debian unstable/main cct 1:1.0.3-1 (dsc) [1997 B] Get:2 http://deb.debian.org/debian unstable/main cct 1:1.0.3-1 (tar) [81.7 MB] Get:3 http://deb.debian.org/debian unstable/main cct 1:1.0.3-1 (diff) [11.7 kB] Fetched 81.7 MB in 4s (21.1 MB/s) Download complete and in download only mode ============================================================================= Re-Building cct in unstable on amd64 on ionos11-amd64 now. Date: Sat Feb 22 01:18:32 UTC 2025 Date UTC: Sat Feb 22 01:18:32 UTC 2025 ============================================================================= ++ mktemp -t pbuilderrc_XXXX --tmpdir=/srv/reproducible-results/rbuild-debian/r-b-build.Oj8iD5xP + local TMPCFG=/srv/reproducible-results/rbuild-debian/r-b-build.Oj8iD5xP/pbuilderrc_QmZs + case ${ARCH} in + case $ARCH in + locale=et_EE + language=et + case "${SUITE}" in + reproducible_buildflags=+all + extra_deb_build_options= + case "${SRCPACKAGE}" in + cat + echo BUILDDIR=/build/reproducible-path + '[' cct = debian-installer -o cct = debian-installer-netboot-images ']' + pbuilder_options=() + local pbuilder_options + DEBBUILDOPTS=-b + BINARYTARGET= + '[' cct = u-boot ']' + case "${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.Oj8iD5xP/pbuilderrc_QmZs --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.Oj8iD5xP/b2 --logfile b2/build.log cct_1.0.3-1.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 15:18:33 +14 2025 I: pbuilder-time-stamp: 1740187113 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 [cct_1.0.3-1.dsc] I: copying [./cct_1.0.3.orig.tar.xz] I: copying [./cct_1.0.3-1.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./cct_1.0.3-1.dsc: unsupported subcommand dpkg-source: info: extracting cct in cct-1.0.3 dpkg-source: info: unpacking cct_1.0.3.orig.tar.xz dpkg-source: info: unpacking cct_1.0.3-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying cgview_path.patch dpkg-source: info: applying testscripts.patch dpkg-source: info: applying fix_cgview_path.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/404264/tmp/hooks/D01_modify_environment starting debug: Running on ionos11-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 01:19 /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/404264/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/404264/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=3c0af6ec972d47e3993c31a9b1040daf 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=404264 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.Oj8iD5xP/pbuilderrc_QmZs --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.Oj8iD5xP/b2 --logfile b2/build.log cct_1.0.3-1.dsc' SUDO_GID=111 SUDO_UID=106 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/404264/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 (= 13), debhelper 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 (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on debhelper; however: Package debhelper 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 (15.9 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/404264/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for unstable I: user script /srv/workspace/pbuilder/404264/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/cct-1.0.3/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../cct_1.0.3-1_source.changes dpkg-buildpackage: info: source package cct dpkg-buildpackage: info: source version 1:1.0.3-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf create-stamp debian/debhelper-build-stamp dh_prep debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/cct-1.0.3' dh_install mkdir -p debian/cct/usr/bin for scr in debian/cct/usr/share/cct/scripts/*.sh ; do \ binscr=`basename ${scr} .sh` ; \ ln -s /usr/share/cct/scripts/generic debian/cct/usr/bin/${binscr} ; \ done for scr in debian/cct/usr/share/cct/scripts/*.pl ; do \ binscr=`basename ${scr} .pl` ; \ ln -s /usr/share/cct/scripts/generic debian/cct/usr/bin/${binscr} ; \ done ln -s /etc/cct debian/cct/usr/share/cct/conf # Move "hidden" examples into example package for sample in `find debian -type d \( -name "sample_output" -o -name "test_input" \)` ; do \ base=`dirname ${sample} | sed 's#debian/cct#debian/cct-examples#'` ; \ mkdir -p ${base} ; \ mv ${sample} ${base} ; \ done for pl in `grep -Rl '#!/usr/bin/env[[:space:]]\+perl' debian/*/usr/*` ; do \ sed -i '1s?^#!/usr/bin/env[[:space:]]\+perl?#!/usr/bin/perl?' ${pl} ; \ done grep: debian/cct/usr/bin/remove_long_seqs: No such file or directory grep: debian/cct/usr/bin/build_blast_atlas: No such file or directory grep: debian/cct/usr/bin/redraw_maps: No such file or directory grep: debian/cct/usr/bin/fetch_all_refseq_bacterial_genomes: No such file or directory grep: debian/cct/usr/bin/fetch_all_refseq_chloroplast_genomes: No such file or directory grep: debian/cct/usr/bin/create_zoomed_maps: No such file or directory grep: debian/cct/usr/bin/build_blast_atlas_all_vs_all: No such file or directory grep: debian/cct/usr/bin/build_cog_db: No such file or directory grep: debian/cct/usr/bin/remove_short_seqs: No such file or directory grep: debian/cct/usr/bin/check_env: No such file or directory grep: debian/cct/usr/bin/convert_vcf_to_features: No such file or directory grep: debian/cct/usr/bin/fetch_genome_by_accession: No such file or directory grep: debian/cct/usr/bin/process_sample_projects: No such file or directory grep: debian/cct/usr/bin/ncbi_search: No such file or directory grep: debian/cct/usr/bin/process_test_projects: No such file or directory grep: debian/cct/usr/bin/cgview_comparison_tool: No such file or directory grep: debian/cct/usr/bin/fetch_all_refseq_mitochondrial_genomes: No such file or directory grep: debian/cct/usr/bin/fetch_refseq_bacterial_genomes_by_name: No such file or directory grep: debian/cct/usr/share/cct/conf: No such file or directory make[1]: Leaving directory '/build/reproducible-path/cct-1.0.3' dh_installdocs dh_installchangelogs dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_installdeb dh_gencontrol dpkg-gencontrol: warning: Depends field of package cct-examples: substitution variable ${perl:Depends} used, but is not defined dh_md5sums dh_builddeb dpkg-deb: building package 'cct-examples' in '../cct-examples_1.0.3-1_all.deb'. dpkg-deb: building package 'cct' in '../cct_1.0.3-1_all.deb'. dpkg-genbuildinfo --build=binary -O../cct_1.0.3-1_amd64.buildinfo dpkg-genchanges --build=binary -O../cct_1.0.3-1_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/404264/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/404264/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/404264 and its subdirectories I: Current time: Sat Feb 22 15:27:15 +14 2025 I: pbuilder-time-stamp: 1740187635 + false + set +x Sat Feb 22 01:27:15 UTC 2025 I: Signing ./b2/cct_1.0.3-1_amd64.buildinfo as cct_1.0.3-1_amd64.buildinfo.asc Sat Feb 22 01:27:16 UTC 2025 I: Signed ./b2/cct_1.0.3-1_amd64.buildinfo as ./b2/cct_1.0.3-1_amd64.buildinfo.asc Sat Feb 22 01:27:16 UTC 2025 - build #2 for cct/unstable/amd64 on ionos11-amd64 done. Starting cleanup. All cleanup done. Sat Feb 22 01:27:16 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-hlbXrz7U, removing. /srv/reproducible-results/rbuild-debian/r-b-build.Oj8iD5xP: total 36 drwxr-xr-x 2 jenkins jenkins 4096 Feb 22 01:18 b1 drwxr-xr-x 2 jenkins jenkins 4096 Feb 22 01:27 b2 -rw-r--r-- 1 jenkins jenkins 1997 Jan 16 2022 cct_1.0.3-1.dsc -rw------- 1 jenkins jenkins 23332 Feb 22 01:18 rbuildlog.kvQ2ooX /srv/reproducible-results/rbuild-debian/r-b-build.Oj8iD5xP/b1: total 156444 -rw-r--r-- 1 jenkins jenkins 19974 Feb 22 01:18 build.log -rw-r--r-- 1 jenkins jenkins 41893420 Feb 22 01:18 cct-examples_1.0.3-1_all.deb -rw-r--r-- 1 jenkins jenkins 11652 Feb 22 01:18 cct_1.0.3-1.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 1997 Feb 22 01:18 cct_1.0.3-1.dsc -rw-r--r-- 1 jenkins jenkins 36332456 Feb 22 01:18 cct_1.0.3-1_all.deb -rw-r--r-- 1 jenkins jenkins 4835 Feb 22 01:18 cct_1.0.3-1_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 5717 Feb 22 01:18 cct_1.0.3-1_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1435 Feb 22 01:18 cct_1.0.3-1_amd64.changes -rw-r--r-- 1 jenkins jenkins 1473 Feb 22 01:18 cct_1.0.3-1_source.changes -rw-r--r-- 1 jenkins jenkins 81734736 Feb 22 01:18 cct_1.0.3.orig.tar.xz /srv/reproducible-results/rbuild-debian/r-b-build.Oj8iD5xP/b2: total 156280 -rw-r--r-- 1 jenkins jenkins 21894 Feb 22 01:27 build.log -rw-r--r-- 1 jenkins jenkins 41893420 Feb 22 01:27 cct-examples_1.0.3-1_all.deb -rw-r--r-- 1 jenkins jenkins 11652 Feb 22 01:27 cct_1.0.3-1.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 1997 Feb 22 01:27 cct_1.0.3-1.dsc -rw-r--r-- 1 jenkins jenkins 36332456 Feb 22 01:27 cct_1.0.3-1_all.deb -rw-r--r-- 1 jenkins jenkins 4826 Feb 22 01:27 cct_1.0.3-1_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 5708 Feb 22 01:27 cct_1.0.3-1_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1435 Feb 22 01:27 cct_1.0.3-1_amd64.changes -rw-r--r-- 1 jenkins jenkins 1473 Feb 22 01:27 cct_1.0.3-1_source.changes -rw-r--r-- 1 jenkins jenkins 81734736 Feb 22 01:27 cct_1.0.3.orig.tar.xz Sat Feb 22 01:27:18 UTC 2025 I: Deleting $TMPDIR on ionos11-amd64.debian.net. Sat Feb 22 01:27:19 UTC 2025 I: cct_1.0.3-1_amd64.changes: Format: 1.8 Date: Sun, 16 Jan 2022 14:49:39 +0100 Source: cct Binary: cct cct-examples Architecture: all Version: 1:1.0.3-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: cct - visually comparing bacterial, plasmid, chloroplast, or mitochondr cct-examples - example data for testing the package cct Changes: cct (1:1.0.3-1) unstable; urgency=medium . * New upstream version * Standards-Version: 4.6.0 (routine-update) * Add missing build dependency on dh addon. Checksums-Sha1: d26c7c8b827768189a551a31b07ad56bd620d37e 41893420 cct-examples_1.0.3-1_all.deb 4869bdb782ad28ddfb156caf4858a528a4d1507f 36332456 cct_1.0.3-1_all.deb e1011bd3387728f005b5f3ac18dbfeacf593990d 4835 cct_1.0.3-1_amd64.buildinfo Checksums-Sha256: 29c7870dca5d64f62f755befed4f210b8c37a9204956ffc4d7b04ef3c1653a1a 41893420 cct-examples_1.0.3-1_all.deb 91b3d1f45d3dcc3e0f8253f0835b60c660cb94eae3342fc0c5fda435ac60dfbe 36332456 cct_1.0.3-1_all.deb 6ea8e35c5815fe5322e8daaa8486c55525bf121566a393f653d9266e1c494d2f 4835 cct_1.0.3-1_amd64.buildinfo Files: 934e5ef0d225aed86469485591e5ca46 41893420 science optional cct-examples_1.0.3-1_all.deb 854cf2bf37b23680c4c46e8c0cdbbddb 36332456 science optional cct_1.0.3-1_all.deb 314af660d771edd096eb6df0fcdc6a1c 4835 science optional cct_1.0.3-1_amd64.buildinfo removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/cct_1.0.3-1.rbuild.log' removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/cct_1.0.3-1.rbuild.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/unstable/amd64/cct_1.0.3-1.build1.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/unstable/amd64/cct_1.0.3-1.build2.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/buildinfo/unstable/amd64/cct_1.0.3-1_amd64.buildinfo' removed '/var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/amd64/cct_1.0.3-1.diff.gz' Diff of the two buildlogs: -- --- b1/build.log 2025-02-22 01:18:25.456071540 +0000 +++ b2/build.log 2025-02-22 01:27:16.688025515 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Thu Mar 26 19:39:58 -12 2026 -I: pbuilder-time-stamp: 1774597198 +I: Current time: Sat Feb 22 15:18:33 +14 2025 +I: pbuilder-time-stamp: 1740187113 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -26,52 +26,84 @@ dpkg-source: info: applying fix_cgview_path.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/18653/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/404264/tmp/hooks/D01_modify_environment starting +debug: Running on ionos11-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 01:19 /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/404264/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/404264/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='3d6701fde3a14f50a355624dbbb84d5a' - 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='18653' - PS1='# ' - PS2='> ' + INVOCATION_ID=3c0af6ec972d47e3993c31a9b1040daf + 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=404264 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.Oj8iD5xP/pbuilderrc_iUMZ --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.Oj8iD5xP/b1 --logfile b1/build.log cct_1.0.3-1.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.Oj8iD5xP/pbuilderrc_QmZs --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.Oj8iD5xP/b2 --logfile b2/build.log cct_1.0.3-1.dsc' + SUDO_GID=111 + SUDO_UID=106 + 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/18653/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/404264/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -139,7 +171,7 @@ 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 1s (34.2 MB/s) +Fetched 20.6 MB in 1s (15.9 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.) @@ -274,7 +306,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/cct-1.0.3/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../cct_1.0.3-1_source.changes +I: user script /srv/workspace/pbuilder/404264/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/404264/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/cct-1.0.3/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../cct_1.0.3-1_source.changes dpkg-buildpackage: info: source package cct dpkg-buildpackage: info: source version 1:1.0.3-1 dpkg-buildpackage: info: source distribution unstable @@ -312,24 +348,24 @@ for pl in `grep -Rl '#!/usr/bin/env[[:space:]]\+perl' debian/*/usr/*` ; do \ sed -i '1s?^#!/usr/bin/env[[:space:]]\+perl?#!/usr/bin/perl?' ${pl} ; \ done -grep: debian/cct/usr/bin/fetch_genome_by_accession: No such file or directory -grep: debian/cct/usr/bin/fetch_all_refseq_bacterial_genomes: No such file or directory -grep: debian/cct/usr/bin/process_test_projects: No such file or directory grep: debian/cct/usr/bin/remove_long_seqs: No such file or directory -grep: debian/cct/usr/bin/ncbi_search: No such file or directory +grep: debian/cct/usr/bin/build_blast_atlas: No such file or directory grep: debian/cct/usr/bin/redraw_maps: No such file or directory -grep: debian/cct/usr/bin/fetch_refseq_bacterial_genomes_by_name: No such file or directory -grep: debian/cct/usr/bin/remove_short_seqs: No such file or directory -grep: debian/cct/usr/bin/check_env: No such file or directory +grep: debian/cct/usr/bin/fetch_all_refseq_bacterial_genomes: No such file or directory +grep: debian/cct/usr/bin/fetch_all_refseq_chloroplast_genomes: No such file or directory grep: debian/cct/usr/bin/create_zoomed_maps: No such file or directory grep: debian/cct/usr/bin/build_blast_atlas_all_vs_all: No such file or directory -grep: debian/cct/usr/bin/build_blast_atlas: No such file or directory +grep: debian/cct/usr/bin/build_cog_db: No such file or directory +grep: debian/cct/usr/bin/remove_short_seqs: No such file or directory +grep: debian/cct/usr/bin/check_env: No such file or directory grep: debian/cct/usr/bin/convert_vcf_to_features: No such file or directory +grep: debian/cct/usr/bin/fetch_genome_by_accession: No such file or directory grep: debian/cct/usr/bin/process_sample_projects: No such file or directory -grep: debian/cct/usr/bin/fetch_all_refseq_chloroplast_genomes: No such file or directory -grep: debian/cct/usr/bin/fetch_all_refseq_mitochondrial_genomes: No such file or directory +grep: debian/cct/usr/bin/ncbi_search: No such file or directory +grep: debian/cct/usr/bin/process_test_projects: No such file or directory grep: debian/cct/usr/bin/cgview_comparison_tool: No such file or directory -grep: debian/cct/usr/bin/build_cog_db: No such file or directory +grep: debian/cct/usr/bin/fetch_all_refseq_mitochondrial_genomes: No such file or directory +grep: debian/cct/usr/bin/fetch_refseq_bacterial_genomes_by_name: No such file or directory grep: debian/cct/usr/share/cct/conf: No such file or directory make[1]: Leaving directory '/build/reproducible-path/cct-1.0.3' dh_installdocs @@ -346,8 +382,8 @@ dpkg-gencontrol: warning: Depends field of package cct-examples: substitution variable ${perl:Depends} used, but is not defined dh_md5sums dh_builddeb -dpkg-deb: building package 'cct' in '../cct_1.0.3-1_all.deb'. dpkg-deb: building package 'cct-examples' in '../cct-examples_1.0.3-1_all.deb'. +dpkg-deb: building package 'cct' in '../cct_1.0.3-1_all.deb'. dpkg-genbuildinfo --build=binary -O../cct_1.0.3-1_amd64.buildinfo dpkg-genchanges --build=binary -O../cct_1.0.3-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -355,12 +391,14 @@ 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/404264/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/404264/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/18653 and its subdirectories -I: Current time: Thu Mar 26 19:41:24 -12 2026 -I: pbuilder-time-stamp: 1774597284 +I: removing directory /srv/workspace/pbuilder/404264 and its subdirectories +I: Current time: Sat Feb 22 15:27:15 +14 2025 +I: pbuilder-time-stamp: 1740187635 Compressing the 2nd log... /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/amd64/cct_1.0.3-1.diff: 69.9% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/amd64/cct_1.0.3-1.diff.gz b2/build.log: 73.8% -- replaced with stdout Compressing the 1st log... b1/build.log: 74.7% -- replaced with stdout Sat Feb 22 01:27:20 UTC 2025 I: diffoscope 288 will be used to compare the two builds: ++ date -u +%s + DIFFOSCOPE_STAMP=/var/log/reproducible-builds/diffoscope_stamp_cct_unstable_amd64_1740187640 + touch /var/log/reproducible-builds/diffoscope_stamp_cct_unstable_amd64_1740187640 + RESULT=0 + systemd-run '--description=diffoscope on cct/1:1.0.3-1 in unstable/amd64' --slice=rb-build-diffoscope.slice -u rb-diffoscope-amd64_6-33340 '--property=SuccessExitStatus=1 124' --user --send-sighup --pipe --wait -E TMPDIR timeout 155m nice schroot --directory /srv/reproducible-results/rbuild-debian/r-b-build.Oj8iD5xP --run-session -c jenkins-reproducible-unstable-diffoscope-f3ca729f-f207-43c0-840b-99042fe220a5 -- sh -c 'export TMPDIR=/srv/reproducible-results/rbuild-debian/r-b-build.Oj8iD5xP/dbd-tmp-v7r1XR0 ; timeout 150m diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.Oj8iD5xP/cct_1.0.3-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.Oj8iD5xP/cct_1.0.3-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.Oj8iD5xP/cct_1.0.3-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.Oj8iD5xP/b1/cct_1.0.3-1_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.Oj8iD5xP/b2/cct_1.0.3-1_amd64.changes' + false + set +x Running as unit: rb-diffoscope-amd64_6-33340.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.Oj8iD5xP/cct_1.0.3-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.Oj8iD5xP/cct_1.0.3-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.Oj8iD5xP/cct_1.0.3-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.Oj8iD5xP/b1/cct_1.0.3-1_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.Oj8iD5xP/b2/cct_1.0.3-1_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: 222ms CPU time consumed: 222ms _ ___ ___| |_ / __/ __| __| | (_| (__| |_ \___\___|\__| Sat Feb 22 01:27:21 UTC 2025 I: diffoscope 288 found no differences in the changes files, and a .buildinfo file also exists. Sat Feb 22 01:27:21 UTC 2025 I: cct from unstable built successfully and reproducibly on amd64. INSERT 0 1 INSERT 0 1 DELETE 1 [2025-02-22 01:27:21] INFO: Starting at 2025-02-22 01:27:21.945161 [2025-02-22 01:27:22] INFO: Generating the pages of 1 package(s) [2025-02-22 01:27:22] CRITICAL: https://tests.reproducible-builds.org/debian/unstable/amd64/cct didn't produce a buildlog, even though it has been built. [2025-02-22 01:27:22] INFO: Finished at 2025-02-22 01:27:22.429245, took: 0:00:00.484092 Sat Feb 22 01:27:22 UTC 2025 - successfully updated the database and updated https://tests.reproducible-builds.org/debian/rb-pkg/unstable/amd64/cct.html Sat Feb 22 01:27:22 UTC 2025 I: Submitting .buildinfo files to external archives: Sat Feb 22 01:27:22 UTC 2025 I: Submitting 8.0K b1/cct_1.0.3-1_amd64.buildinfo.asc https://buildinfo.debian.net/e1011bd3387728f005b5f3ac18dbfeacf593990d/cct_1:1.0.3-1_all Sat Feb 22 01:27:23 UTC 2025 I: Submitting 8.0K b2/cct_1.0.3-1_amd64.buildinfo.asc https://buildinfo.debian.net/d9748baa2c1e242b445b9786671abb12842a05e0/cct_1:1.0.3-1_all Sat Feb 22 01:27:24 UTC 2025 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sat Feb 22 01:27:24 UTC 2025 I: Done submitting .buildinfo files. Sat Feb 22 01:27:24 UTC 2025 I: Removing signed cct_1.0.3-1_amd64.buildinfo.asc files: removed './b1/cct_1.0.3-1_amd64.buildinfo.asc' removed './b2/cct_1.0.3-1_amd64.buildinfo.asc' 1740187644 amd64 unstable cct Starting cleanup. /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/cct_1.0.3-1.rbuild.log: 70.9% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/cct_1.0.3-1.rbuild.log.gz [2025-02-22 01:27:24] INFO: Starting at 2025-02-22 01:27:24.658024 [2025-02-22 01:27:24] INFO: Generating the pages of 1 package(s) [2025-02-22 01:27:25] INFO: Finished at 2025-02-22 01:27:25.194301, took: 0:00:00.536284 All cleanup done. Sat Feb 22 01:27:25 UTC 2025 - total duration: 0h 10m 38s. Sat Feb 22 01:27:25 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-Qcq9QRsW, removing. Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 10min 41.501s CPU time consumed: 10.004s