Running as unit: rb-build-amd64_26-32588.service ==================================================================================== Sat Feb 22 09:25:05 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job reproducible_builder_amd64_26) on jenkins, called using "ionos5-amd64 ionos1-amd64" as arguments. Sat Feb 22 09:25:05 UTC 2025 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-rJdTLmMV" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Sat Feb 22 09:25:05 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos5-amd64.debian.net is marked as down. Sat Feb 22 09:25:05 UTC 2025 - checking via ssh if ionos5-amd64.debian.net is up. removed '/tmp/read-only-fs-test-7X0zxN' Sat Feb 22 09:25:06 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos1-amd64.debian.net is marked as down. Sat Feb 22 09:25:06 UTC 2025 - checking via ssh if ionos1-amd64.debian.net is up. removed '/tmp/read-only-fs-test-wQcMau' ok, let's check if cd-hit is building anywhere yet… ok, cd-hit is not building anywhere… UPDATE 1 ============================================================================= Initialising reproducibly build of cd-hit in trixie on amd64 on jenkins now. 1st build will be done on ionos5-amd64.debian.net. 2nd build will be done on ionos1-amd64.debian.net. ============================================================================= Sat Feb 22 09:25:18 UTC 2025 I: starting to build cd-hit/trixie/amd64 on jenkins on '2025-02-22 09:25' Sat Feb 22 09:25:18 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_26/32588/console.log 1740216318 amd64 trixie cd-hit Sat Feb 22 09:25:18 UTC 2025 I: Downloading source for trixie/cd-hit=4.8.1-4 --2025-02-22 09:25:18-- http://deb.debian.org/debian/pool/main/c/cd-hit/cd-hit_4.8.1-4.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2032 (2.0K) [text/prs.lines.tag] Saving to: ‘cd-hit_4.8.1-4.dsc’ 0K . 100% 325M=0s 2025-02-22 09:25:18 (325 MB/s) - ‘cd-hit_4.8.1-4.dsc’ saved [2032/2032] --2025-02-22 09:25:18-- http://deb.debian.org/debian/pool/main/c/cd-hit/cd-hit_4.8.1-4.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2032 (2.0K) [text/prs.lines.tag] Saving to: ‘cd-hit_4.8.1-4.dsc’ 0K . 100% 325M=0s 2025-02-22 09:25:18 (325 MB/s) - ‘cd-hit_4.8.1-4.dsc’ saved [2032/2032] Sat Feb 22 09:25:18 UTC 2025 I: cd-hit_4.8.1-4.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: cd-hit Binary: cd-hit Architecture: any Version: 4.8.1-4 Maintainer: Debian Med Packaging Team Uploaders: Tim Booth , Andreas Tille , Étienne Mollier Homepage: http://weizhongli-lab.org/cd-hit/ Standards-Version: 4.6.0 Vcs-Browser: https://salsa.debian.org/med-team/cd-hit Vcs-Git: https://salsa.debian.org/med-team/cd-hit.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), help2man, zlib1g-dev Package-List: cd-hit deb science optional arch=any Checksums-Sha1: 12c401562cd506296ccafa301e1fd8a29b210470 945639 cd-hit_4.8.1.orig.tar.gz 0c7096447908bdbb0cb5795b02171c585d3618f0 8128 cd-hit_4.8.1-4.debian.tar.xz Checksums-Sha256: f8bc3cdd7aebb432fcd35eed0093e7a6413f1e36bbd2a837ebc06e57cdb20b70 945639 cd-hit_4.8.1.orig.tar.gz 827e471b3724e5680aebf69c155d825aa812be549bf0536defc29668f3abbbe1 8128 cd-hit_4.8.1-4.debian.tar.xz Files: b997bcc5a07703ca9bd3f84818114c37 945639 cd-hit_4.8.1.orig.tar.gz 40beb397b78cc269ea9dc48f9fa22c88 8128 cd-hit_4.8.1-4.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmEfbYsUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdqkXBAAwMJobCyKBNsZS2dmYUeOST550IJT CeDXSEggmWF9Mw5Rkmazj7TWBRkk0YlhVPhCcJqHiVOnF2ZqP/39oRq7Gr9ZxRvd WkXWxTtJUhJ76sMedjgLxSN+5ymYWc5eTVeTaJnW3rhXRWKp4TSZ137LbRUwSwue SA2acrDl61yZYLP2NunGob882kAdDbWyiYLElvr8dZClEaOfMyCcla3sAwzxVSYW U5xbyTLuOOFI2PZoXcspmJhU/aKo6YtEYEQJKUckD3+RziXLNtbOIe7cvq4STRp7 N03vUNU81KDxjmkoQXMJLHDbyQjh61w6KkdTGCICuWGa9Ihxk3dKLCs4/B4h+yKo 2sSELDU9KDATXVtDS4ZdoFTPxaYgVahmaDQJwSOD958iq2QJoyhWyg+HAz55raPJ hBOu+kAIym6lGbmRsTRVkblFX0KgDZa19jzu+sfR7W3HBFNeWDPZMI65fykUU8HQ Kovkw+grEPeLiZiejk0tsV2x9VyCRsjRiBMwk/19QKvSbf34hgx6unRsiMHwwMSM SXOOqIQAz8PUWAAF2NXe3lSdaX69XFyB6W+unGrKnTAx6Uf8zNqzqGTYn6DG4tls YeGY/8TqU3JMWCUT7zNXAljxfYviGtg0Lme1WH3eFb2T/xKxUOLOGSitBQHD2YER XB4SNWSZft9uOFE= =0WHq -----END PGP SIGNATURE----- Sat Feb 22 09:25:18 UTC 2025 I: Checking whether the package is not for us Sat Feb 22 09:25:18 UTC 2025 I: Starting 1st build on remote node ionos5-amd64.debian.net. Sat Feb 22 09:25:18 UTC 2025 I: Preparing to do remote build '1' on ionos5-amd64.debian.net. Sat Feb 22 09:25:18 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos5-amd64.debian.net is marked as down. Sat Feb 22 09:25:18 UTC 2025 - checking via ssh if ionos5-amd64.debian.net is up. removed '/tmp/read-only-fs-test-dxpgym' ==================================================================================== Fri Mar 27 15:48:19 UTC 2026 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on ionos5-amd64, called using "1 cd-hit trixie /srv/reproducible-results/rbuild-debian/r-b-build.2pWVRlST 4.8.1-4" as arguments. Fri Mar 27 15:48:19 UTC 2026 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-LyztENw6" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Fri Mar 27 15:48:19 UTC 2026 I: Downloading source for trixie/cd-hit=4.8.1-4 Reading package lists... NOTICE: 'cd-hit' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/cd-hit.git Please use: git clone https://salsa.debian.org/med-team/cd-hit.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 956 kB of source archives. Get:1 http://deb.debian.org/debian trixie/main cd-hit 4.8.1-4 (dsc) [2032 B] Get:2 http://deb.debian.org/debian trixie/main cd-hit 4.8.1-4 (tar) [946 kB] Get:3 http://deb.debian.org/debian trixie/main cd-hit 4.8.1-4 (diff) [8128 B] Fetched 956 kB in 0s (6132 kB/s) Download complete and in download only mode Reading package lists... NOTICE: 'cd-hit' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/cd-hit.git Please use: git clone https://salsa.debian.org/med-team/cd-hit.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 956 kB of source archives. Get:1 http://deb.debian.org/debian trixie/main cd-hit 4.8.1-4 (dsc) [2032 B] Get:2 http://deb.debian.org/debian trixie/main cd-hit 4.8.1-4 (tar) [946 kB] Get:3 http://deb.debian.org/debian trixie/main cd-hit 4.8.1-4 (diff) [8128 B] Fetched 956 kB in 0s (6132 kB/s) Download complete and in download only mode ============================================================================= Building cd-hit in trixie on amd64 on ionos5-amd64 now. Date: Fri Mar 27 15:48:20 UTC 2026 Date UTC: Fri Mar 27 15:48:20 UTC 2026 ============================================================================= W: /root/.pbuilderrc does not exist I: Logging to b1/build.log I: pbuilder: network access will be disabled during build I: Current time: Fri Mar 27 03:48:20 -12 2026 I: pbuilder-time-stamp: 1774626500 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [cd-hit_4.8.1-4.dsc] I: copying [./cd-hit_4.8.1.orig.tar.gz] I: copying [./cd-hit_4.8.1-4.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./cd-hit_4.8.1-4.dsc: unsupported subcommand dpkg-source: info: extracting cd-hit in cd-hit-4.8.1 dpkg-source: info: unpacking cd-hit_4.8.1.orig.tar.gz dpkg-source: info: unpacking cd-hit_4.8.1-4.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying enable_help2man.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/774428/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='trixie' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='40cc0020aa2d48f8af96f385fa3e3dc2' 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='774428' 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.2pWVRlST/pbuilderrc_EIrO --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.2pWVRlST/b1 --logfile b1/build.log cd-hit_4.8.1-4.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/774428/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), help2man, zlib1g-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19858 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 help2man; however: Package help2man is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev 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} help2man{a} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libicu72{a} liblocale-gettext-perl{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} zlib1g-dev{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, 33 newly installed, 0 to remove and 0 not upgraded. Need to get 21.7 MB of archives. After unpacking 79.9 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main amd64 liblocale-gettext-perl amd64 1.07-7+b1 [15.3 kB] Get: 2 http://deb.debian.org/debian trixie/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 3 http://deb.debian.org/debian trixie/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 4 http://deb.debian.org/debian trixie/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 5 http://deb.debian.org/debian trixie/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 6 http://deb.debian.org/debian trixie/main amd64 gettext-base amd64 0.23.1-1 [243 kB] Get: 7 http://deb.debian.org/debian trixie/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 8 http://deb.debian.org/debian trixie/main amd64 groff-base amd64 1.23.0-7 [1185 kB] Get: 9 http://deb.debian.org/debian trixie/main amd64 bsdextrautils amd64 2.40.4-3 [92.1 kB] Get: 10 http://deb.debian.org/debian trixie/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 11 http://deb.debian.org/debian trixie/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 12 http://deb.debian.org/debian trixie/main amd64 m4 amd64 1.4.19-5 [294 kB] Get: 13 http://deb.debian.org/debian trixie/main amd64 autoconf all 2.72-3 [493 kB] Get: 14 http://deb.debian.org/debian trixie/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 15 http://deb.debian.org/debian trixie/main amd64 automake all 1:1.17-3 [862 kB] Get: 16 http://deb.debian.org/debian trixie/main amd64 autopoint all 0.23.1-1 [770 kB] Get: 17 http://deb.debian.org/debian trixie/main amd64 libdebhelper-perl all 13.24.1 [90.9 kB] Get: 18 http://deb.debian.org/debian trixie/main amd64 libtool all 2.5.4-3 [539 kB] Get: 19 http://deb.debian.org/debian trixie/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 20 http://deb.debian.org/debian trixie/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 21 http://deb.debian.org/debian trixie/main amd64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 22 http://deb.debian.org/debian trixie/main amd64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 23 http://deb.debian.org/debian trixie/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 24 http://deb.debian.org/debian trixie/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 25 http://deb.debian.org/debian trixie/main amd64 libunistring5 amd64 1.3-1 [476 kB] Get: 26 http://deb.debian.org/debian trixie/main amd64 libicu72 amd64 72.1-6 [9421 kB] Get: 27 http://deb.debian.org/debian trixie/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [699 kB] Get: 28 http://deb.debian.org/debian trixie/main amd64 gettext amd64 0.23.1-1 [1680 kB] Get: 29 http://deb.debian.org/debian trixie/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 30 http://deb.debian.org/debian trixie/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 31 http://deb.debian.org/debian trixie/main amd64 debhelper all 13.24.1 [920 kB] Get: 32 http://deb.debian.org/debian trixie/main amd64 help2man amd64 1.49.3 [198 kB] Get: 33 http://deb.debian.org/debian trixie/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Fetched 21.7 MB in 0s (92.5 MB/s) Preconfiguring packages ... Selecting previously unselected package liblocale-gettext-perl. (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 ... 19858 files and directories currently installed.) Preparing to unpack .../00-liblocale-gettext-perl_1.07-7+b1_amd64.deb ... Unpacking liblocale-gettext-perl (1.07-7+b1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../02-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 .../03-libmagic1t64_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../04-file_1%3a5.45-3+b1_amd64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../05-gettext-base_0.23.1-1_amd64.deb ... Unpacking gettext-base (0.23.1-1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../06-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 .../07-groff-base_1.23.0-7_amd64.deb ... Unpacking groff-base (1.23.0-7) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../08-bsdextrautils_2.40.4-3_amd64.deb ... Unpacking bsdextrautils (2.40.4-3) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../09-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../10-man-db_2.13.0-1_amd64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../11-m4_1.4.19-5_amd64.deb ... Unpacking m4 (1.4.19-5) ... Selecting previously unselected package autoconf. Preparing to unpack .../12-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../13-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../14-automake_1%3a1.17-3_all.deb ... Unpacking automake (1:1.17-3) ... Selecting previously unselected package autopoint. Preparing to unpack .../15-autopoint_0.23.1-1_all.deb ... Unpacking autopoint (0.23.1-1) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../16-libdebhelper-perl_13.24.1_all.deb ... Unpacking libdebhelper-perl (13.24.1) ... Selecting previously unselected package libtool. Preparing to unpack .../17-libtool_2.5.4-3_all.deb ... Unpacking libtool (2.5.4-3) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../18-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../19-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 .../20-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 .../21-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 .../22-libelf1t64_0.192-4_amd64.deb ... Unpacking libelf1t64:amd64 (0.192-4) ... Selecting previously unselected package dwz. Preparing to unpack .../23-dwz_0.15-1+b1_amd64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libunistring5:amd64. Preparing to unpack .../24-libunistring5_1.3-1_amd64.deb ... Unpacking libunistring5:amd64 (1.3-1) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../25-libicu72_72.1-6_amd64.deb ... Unpacking libicu72:amd64 (72.1-6) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../26-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 .../27-gettext_0.23.1-1_amd64.deb ... Unpacking gettext (0.23.1-1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../28-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 .../29-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../30-debhelper_13.24.1_all.deb ... Unpacking debhelper (13.24.1) ... Selecting previously unselected package help2man. Preparing to unpack .../31-help2man_1.49.3_amd64.deb ... Unpacking help2man (1.49.3) ... Selecting previously unselected package zlib1g-dev:amd64. Preparing to unpack .../32-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1+b1_amd64.deb ... Unpacking zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up libpipeline1:amd64 (1.5.8-1) ... Setting up libicu72:amd64 (72.1-6) ... Setting up bsdextrautils (2.40.4-3) ... 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 zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... 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 liblocale-gettext-perl (1.07-7+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 help2man (1.49.3) ... 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/cd-hit-4.8.1/ && 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 > ../cd-hit_4.8.1-4_source.changes dpkg-buildpackage: info: source package cd-hit dpkg-buildpackage: info: source version 4.8.1-4 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_auto_clean make -j42 clean make[1]: Entering directory '/build/reproducible-path/cd-hit-4.8.1' rm -f *.o cd-hit cd-hit-est cd-hit-2d cd-hit-est-2d cd-hit-div cd-hit-454 make[1]: Leaving directory '/build/reproducible-path/cd-hit-4.8.1' dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/cd-hit-4.8.1' dh_auto_build -- openmp=yes CC='$(CXX)' make -j42 "INSTALL=install --strip-program=true" openmp=yes CC=\$\(CXX\) make[2]: Entering directory '/build/reproducible-path/cd-hit-4.8.1' g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-common.c++ -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-utility.c++ -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit.c++ -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-est.c++ -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-2d.c++ -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-est-2d.c++ -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-div.c++ -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-454.c++ -c cdhit-common.c++:322:23: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 322 | strcpy( date, __DATE__ ); | ^~~~~~~~ cdhit-common.c++:326:73: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 326 | printf( "Program: CD-HIT, V" CDHIT_VERSION WITH_OPENMP ", %s, " __TIME__ "\n", date ); | ^~~~~~~~ cdhit-utility.c++:9:79: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 9 | char cd_hit_ver[] = "\t\t====== CD-HIT version " CDHIT_VERSION " (built on " __DATE__ ") ======"; | ^~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit.o cdhit-common.o cdhit-utility.o -Wl,-z,relro -Wl,-z,now -lz -o cd-hit g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-est.o cdhit-common.o cdhit-utility.o -Wl,-z,relro -Wl,-z,now -lz -o cd-hit-est g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-2d.o cdhit-common.o cdhit-utility.o -Wl,-z,relro -Wl,-z,now -lz -o cd-hit-2d g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-est-2d.o cdhit-common.o cdhit-utility.o -Wl,-z,relro -Wl,-z,now -lz -o cd-hit-est-2d g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-div.o cdhit-common.o cdhit-utility.o -Wl,-z,relro -Wl,-z,now -lz -o cd-hit-div g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-454.o cdhit-common.o cdhit-utility.o -Wl,-z,relro -Wl,-z,now -lz -o cd-hit-454 make[2]: Leaving directory '/build/reproducible-path/cd-hit-4.8.1' make[1]: Leaving directory '/build/reproducible-path/cd-hit-4.8.1' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_installdirs debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/cd-hit-4.8.1' dh_auto_install -- PREFIX=debian/cd-hit/usr/lib/cd-hit make -j42 install DESTDIR=/build/reproducible-path/cd-hit-4.8.1/debian/cd-hit AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" PREFIX=debian/cd-hit/usr/lib/cd-hit make[2]: Entering directory '/build/reproducible-path/cd-hit-4.8.1' for prog in cd-hit cd-hit-est cd-hit-2d cd-hit-est-2d cd-hit-div cd-hit-454; do \ install -m 0755 $prog debian/cd-hit/usr/lib/cd-hit; \ done install -m 0755 *.pl debian/cd-hit/usr/lib/cd-hit; make[2]: Leaving directory '/build/reproducible-path/cd-hit-4.8.1' make[1]: Leaving directory '/build/reproducible-path/cd-hit-4.8.1' dh_installdocs dh_installchangelogs dh_installexamples debian/rules override_dh_installman make[1]: Entering directory '/build/reproducible-path/cd-hit-4.8.1' mkdir -p /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1/ help2man --no-info --no-discard-stderr --version-string='4.8.1' \ --name='quickly group sequences' \ /build/reproducible-path/cd-hit-4.8.1/cd-hit > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//cd-hit.1 help2man --no-info --no-discard-stderr --version-string='4.8.1' \ --name='quickly group sequences, optimised for 454 data' \ /build/reproducible-path/cd-hit-4.8.1/cd-hit-454 > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//cd-hit-454.1 help2man --no-info --no-discard-stderr --version-string='4.8.1' \ --name='quickly group sequences in db1 or db2 format' \ /build/reproducible-path/cd-hit-4.8.1/cd-hit-2d > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//cd-hit-2d.1 help2man --no-info --no-discard-stderr --version-string='4.8.1' \ --name='run CD-HIT algorithm on RNA/DNA sequences' \ /build/reproducible-path/cd-hit-4.8.1/cd-hit-est > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//cd-hit-est.1 help2man --no-info --no-discard-stderr --version-string='4.8.1' \ --name='run CD-HIT algorithm on RNA/DNA sequences in db1 or db2 format' \ /build/reproducible-path/cd-hit-4.8.1/cd-hit-est-2d > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//cd-hit-est-2d.1 help2man --no-info --no-discard-stderr --version-string='4.8.1' \ --name='divide a big clustering job into pieces to run cd-hit-2d or cd-hit-est-2d jobs' \ /build/reproducible-path/cd-hit-4.8.1/cd-hit-2d-para.pl > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//cd-hit-2d-para.1 help2man --no-info --no-discard-stderr --version-string='4.8.1' \ --name='divide a big clustering job into pieces to run cd-hit or cd-hit-est jobs' \ /build/reproducible-path/cd-hit-4.8.1/cd-hit-para.pl > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//cd-hit-para.1 help2man --no-info --no-discard-stderr --version-string='4.8.1' \ --name='divide a FASTA file into pieces' \ /build/reproducible-path/cd-hit-4.8.1/cd-hit-div.pl > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//cd-hit-div.1 # psi-cd-hit.pl is throwing some errors which are fixed using sed # ... at least in versions <= 4.6.4 - now help2man does not work at all #help2man --no-info --no-discard-stderr --version-string='4.8.1' \ # --name='runs similar algorithm like CD-HIT but using BLAST to calculate similarities' \ # /build/reproducible-path/cd-hit-4.8.1/psi-cd-hit.pl | \ # sed -e '/^Name "main::.*" used only once:/d' \ # > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//psi-cd-hit.1 # help2man does not work at all since version 4.6.4 #help2man --no-info --no-discard-stderr --version-string='4.8.1' \ # --name='runs similar algorithm like CD-HIT but using BLAST to calculate similarities in db1 or db2 format' \ # /build/reproducible-path/cd-hit-4.8.1/psi-cd-hit-2d.pl > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//psi-cd-hit-2d.1 # FIXME: what is the difference between psi-cd-hit-2d.pl and psi-cd-hit-2d-g1.pl ? # help2man does not work at all since version 4.6.4 #help2man --no-info --no-discard-stderr --version-string='4.8.1' \ # --name='runs similar algorithm like CD-HIT but using BLAST to calculate similarities in db1 or db2 format' \ # /build/reproducible-path/cd-hit-4.8.1/psi-cd-hit-2d-g1.pl > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//psi-cd-hit-2d-g1.1 # No help output from # clstr2tree.pl # clstr_merge.pl # clstr_merge_noorder.pl # clstr_reduce.pl # clstr_renumber.pl # clstr_rev.pl # clstr_sort_by.pl # clstr_sort_prot_by # make_multi_seq # psi-cd-hit-local.pl -> even throws several "used only once: possible typo" errors make[1]: Leaving directory '/build/reproducible-path/cd-hit-4.8.1' dh_perl dh_link dh_strip_nondeterminism debian/rules override_dh_compress make[1]: Entering directory '/build/reproducible-path/cd-hit-4.8.1' dh_compress --exclude=.pdf make[1]: Leaving directory '/build/reproducible-path/cd-hit-4.8.1' dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'cd-hit' in '../cd-hit_4.8.1-4_amd64.deb'. dpkg-deb: building package 'cd-hit-dbgsym' in '../cd-hit-dbgsym_4.8.1-4_amd64.deb'. dpkg-genbuildinfo --build=binary -O../cd-hit_4.8.1-4_amd64.buildinfo dpkg-genchanges --build=binary -O../cd-hit_4.8.1-4_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/774428 and its subdirectories I: Current time: Fri Mar 27 03:49:09 -12 2026 I: pbuilder-time-stamp: 1774626549 Fri Mar 27 15:49:09 UTC 2026 I: Signing ./b1/cd-hit_4.8.1-4_amd64.buildinfo as cd-hit_4.8.1-4_amd64.buildinfo.asc Fri Mar 27 15:49:09 UTC 2026 I: Signed ./b1/cd-hit_4.8.1-4_amd64.buildinfo as ./b1/cd-hit_4.8.1-4_amd64.buildinfo.asc Fri Mar 27 15:49:09 UTC 2026 - build #1 for cd-hit/trixie/amd64 on ionos5-amd64 done. Starting cleanup. All cleanup done. Fri Mar 27 15:49:09 UTC 2026 - reproducible_build.sh stopped running as /tmp/jenkins-script-LyztENw6, removing. /srv/reproducible-results/rbuild-debian/r-b-build.2pWVRlST: total 16 drwxr-xr-x 2 jenkins jenkins 4096 Feb 22 09:26 b1 drwxr-xr-x 2 jenkins jenkins 4096 Feb 22 09:25 b2 -rw-r--r-- 1 jenkins jenkins 2032 Aug 20 2021 cd-hit_4.8.1-4.dsc -rw------- 1 jenkins jenkins 3121 Feb 22 09:25 rbuildlog.IzKuRsc /srv/reproducible-results/rbuild-debian/r-b-build.2pWVRlST/b1: total 2572 -rw-r--r-- 1 jenkins jenkins 28842 Feb 22 09:26 build.log -rw-r--r-- 1 jenkins jenkins 2037992 Feb 22 09:26 cd-hit-dbgsym_4.8.1-4_amd64.deb -rw-r--r-- 1 jenkins jenkins 8128 Feb 22 09:26 cd-hit_4.8.1-4.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2032 Feb 22 09:26 cd-hit_4.8.1-4.dsc -rw-r--r-- 1 jenkins jenkins 4969 Feb 22 09:26 cd-hit_4.8.1-4_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 5851 Feb 22 09:26 cd-hit_4.8.1-4_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1497 Feb 22 09:26 cd-hit_4.8.1-4_amd64.changes -rw-r--r-- 1 jenkins jenkins 522828 Feb 22 09:26 cd-hit_4.8.1-4_amd64.deb -rw-r--r-- 1 jenkins jenkins 1348 Feb 22 09:26 cd-hit_4.8.1-4_source.changes /srv/reproducible-results/rbuild-debian/r-b-build.2pWVRlST/b2: total 0 Sat Feb 22 09:26:10 UTC 2025 I: Deleting $TMPDIR on ionos5-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Fri Mar 27 03:48:20 -12 2026 I: pbuilder-time-stamp: 1774626500 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [cd-hit_4.8.1-4.dsc] I: copying [./cd-hit_4.8.1.orig.tar.gz] I: copying [./cd-hit_4.8.1-4.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./cd-hit_4.8.1-4.dsc: unsupported subcommand dpkg-source: info: extracting cd-hit in cd-hit-4.8.1 dpkg-source: info: unpacking cd-hit_4.8.1.orig.tar.gz dpkg-source: info: unpacking cd-hit_4.8.1-4.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying enable_help2man.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/774428/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='trixie' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='40cc0020aa2d48f8af96f385fa3e3dc2' 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='774428' 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.2pWVRlST/pbuilderrc_EIrO --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.2pWVRlST/b1 --logfile b1/build.log cd-hit_4.8.1-4.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/774428/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), help2man, zlib1g-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19858 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 help2man; however: Package help2man is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev 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} help2man{a} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libicu72{a} liblocale-gettext-perl{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} zlib1g-dev{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, 33 newly installed, 0 to remove and 0 not upgraded. Need to get 21.7 MB of archives. After unpacking 79.9 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main amd64 liblocale-gettext-perl amd64 1.07-7+b1 [15.3 kB] Get: 2 http://deb.debian.org/debian trixie/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 3 http://deb.debian.org/debian trixie/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 4 http://deb.debian.org/debian trixie/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 5 http://deb.debian.org/debian trixie/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 6 http://deb.debian.org/debian trixie/main amd64 gettext-base amd64 0.23.1-1 [243 kB] Get: 7 http://deb.debian.org/debian trixie/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 8 http://deb.debian.org/debian trixie/main amd64 groff-base amd64 1.23.0-7 [1185 kB] Get: 9 http://deb.debian.org/debian trixie/main amd64 bsdextrautils amd64 2.40.4-3 [92.1 kB] Get: 10 http://deb.debian.org/debian trixie/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 11 http://deb.debian.org/debian trixie/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 12 http://deb.debian.org/debian trixie/main amd64 m4 amd64 1.4.19-5 [294 kB] Get: 13 http://deb.debian.org/debian trixie/main amd64 autoconf all 2.72-3 [493 kB] Get: 14 http://deb.debian.org/debian trixie/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 15 http://deb.debian.org/debian trixie/main amd64 automake all 1:1.17-3 [862 kB] Get: 16 http://deb.debian.org/debian trixie/main amd64 autopoint all 0.23.1-1 [770 kB] Get: 17 http://deb.debian.org/debian trixie/main amd64 libdebhelper-perl all 13.24.1 [90.9 kB] Get: 18 http://deb.debian.org/debian trixie/main amd64 libtool all 2.5.4-3 [539 kB] Get: 19 http://deb.debian.org/debian trixie/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 20 http://deb.debian.org/debian trixie/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 21 http://deb.debian.org/debian trixie/main amd64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 22 http://deb.debian.org/debian trixie/main amd64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 23 http://deb.debian.org/debian trixie/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 24 http://deb.debian.org/debian trixie/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 25 http://deb.debian.org/debian trixie/main amd64 libunistring5 amd64 1.3-1 [476 kB] Get: 26 http://deb.debian.org/debian trixie/main amd64 libicu72 amd64 72.1-6 [9421 kB] Get: 27 http://deb.debian.org/debian trixie/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [699 kB] Get: 28 http://deb.debian.org/debian trixie/main amd64 gettext amd64 0.23.1-1 [1680 kB] Get: 29 http://deb.debian.org/debian trixie/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 30 http://deb.debian.org/debian trixie/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 31 http://deb.debian.org/debian trixie/main amd64 debhelper all 13.24.1 [920 kB] Get: 32 http://deb.debian.org/debian trixie/main amd64 help2man amd64 1.49.3 [198 kB] Get: 33 http://deb.debian.org/debian trixie/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Fetched 21.7 MB in 0s (92.5 MB/s) Preconfiguring packages ... Selecting previously unselected package liblocale-gettext-perl. (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 ... 19858 files and directories currently installed.) Preparing to unpack .../00-liblocale-gettext-perl_1.07-7+b1_amd64.deb ... Unpacking liblocale-gettext-perl (1.07-7+b1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../02-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 .../03-libmagic1t64_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../04-file_1%3a5.45-3+b1_amd64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../05-gettext-base_0.23.1-1_amd64.deb ... Unpacking gettext-base (0.23.1-1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../06-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 .../07-groff-base_1.23.0-7_amd64.deb ... Unpacking groff-base (1.23.0-7) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../08-bsdextrautils_2.40.4-3_amd64.deb ... Unpacking bsdextrautils (2.40.4-3) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../09-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../10-man-db_2.13.0-1_amd64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../11-m4_1.4.19-5_amd64.deb ... Unpacking m4 (1.4.19-5) ... Selecting previously unselected package autoconf. Preparing to unpack .../12-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../13-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../14-automake_1%3a1.17-3_all.deb ... Unpacking automake (1:1.17-3) ... Selecting previously unselected package autopoint. Preparing to unpack .../15-autopoint_0.23.1-1_all.deb ... Unpacking autopoint (0.23.1-1) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../16-libdebhelper-perl_13.24.1_all.deb ... Unpacking libdebhelper-perl (13.24.1) ... Selecting previously unselected package libtool. Preparing to unpack .../17-libtool_2.5.4-3_all.deb ... Unpacking libtool (2.5.4-3) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../18-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../19-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 .../20-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 .../21-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 .../22-libelf1t64_0.192-4_amd64.deb ... Unpacking libelf1t64:amd64 (0.192-4) ... Selecting previously unselected package dwz. Preparing to unpack .../23-dwz_0.15-1+b1_amd64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libunistring5:amd64. Preparing to unpack .../24-libunistring5_1.3-1_amd64.deb ... Unpacking libunistring5:amd64 (1.3-1) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../25-libicu72_72.1-6_amd64.deb ... Unpacking libicu72:amd64 (72.1-6) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../26-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 .../27-gettext_0.23.1-1_amd64.deb ... Unpacking gettext (0.23.1-1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../28-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 .../29-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../30-debhelper_13.24.1_all.deb ... Unpacking debhelper (13.24.1) ... Selecting previously unselected package help2man. Preparing to unpack .../31-help2man_1.49.3_amd64.deb ... Unpacking help2man (1.49.3) ... Selecting previously unselected package zlib1g-dev:amd64. Preparing to unpack .../32-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1+b1_amd64.deb ... Unpacking zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up libpipeline1:amd64 (1.5.8-1) ... Setting up libicu72:amd64 (72.1-6) ... Setting up bsdextrautils (2.40.4-3) ... 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 zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... 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 liblocale-gettext-perl (1.07-7+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 help2man (1.49.3) ... 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/cd-hit-4.8.1/ && 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 > ../cd-hit_4.8.1-4_source.changes dpkg-buildpackage: info: source package cd-hit dpkg-buildpackage: info: source version 4.8.1-4 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_auto_clean make -j42 clean make[1]: Entering directory '/build/reproducible-path/cd-hit-4.8.1' rm -f *.o cd-hit cd-hit-est cd-hit-2d cd-hit-est-2d cd-hit-div cd-hit-454 make[1]: Leaving directory '/build/reproducible-path/cd-hit-4.8.1' dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/cd-hit-4.8.1' dh_auto_build -- openmp=yes CC='$(CXX)' make -j42 "INSTALL=install --strip-program=true" openmp=yes CC=\$\(CXX\) make[2]: Entering directory '/build/reproducible-path/cd-hit-4.8.1' g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-common.c++ -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-utility.c++ -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit.c++ -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-est.c++ -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-2d.c++ -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-est-2d.c++ -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-div.c++ -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-454.c++ -c cdhit-common.c++:322:23: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 322 | strcpy( date, __DATE__ ); | ^~~~~~~~ cdhit-common.c++:326:73: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 326 | printf( "Program: CD-HIT, V" CDHIT_VERSION WITH_OPENMP ", %s, " __TIME__ "\n", date ); | ^~~~~~~~ cdhit-utility.c++:9:79: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 9 | char cd_hit_ver[] = "\t\t====== CD-HIT version " CDHIT_VERSION " (built on " __DATE__ ") ======"; | ^~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit.o cdhit-common.o cdhit-utility.o -Wl,-z,relro -Wl,-z,now -lz -o cd-hit g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-est.o cdhit-common.o cdhit-utility.o -Wl,-z,relro -Wl,-z,now -lz -o cd-hit-est g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-2d.o cdhit-common.o cdhit-utility.o -Wl,-z,relro -Wl,-z,now -lz -o cd-hit-2d g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-est-2d.o cdhit-common.o cdhit-utility.o -Wl,-z,relro -Wl,-z,now -lz -o cd-hit-est-2d g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-div.o cdhit-common.o cdhit-utility.o -Wl,-z,relro -Wl,-z,now -lz -o cd-hit-div g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-454.o cdhit-common.o cdhit-utility.o -Wl,-z,relro -Wl,-z,now -lz -o cd-hit-454 make[2]: Leaving directory '/build/reproducible-path/cd-hit-4.8.1' make[1]: Leaving directory '/build/reproducible-path/cd-hit-4.8.1' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_installdirs debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/cd-hit-4.8.1' dh_auto_install -- PREFIX=debian/cd-hit/usr/lib/cd-hit make -j42 install DESTDIR=/build/reproducible-path/cd-hit-4.8.1/debian/cd-hit AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" PREFIX=debian/cd-hit/usr/lib/cd-hit make[2]: Entering directory '/build/reproducible-path/cd-hit-4.8.1' for prog in cd-hit cd-hit-est cd-hit-2d cd-hit-est-2d cd-hit-div cd-hit-454; do \ install -m 0755 $prog debian/cd-hit/usr/lib/cd-hit; \ done install -m 0755 *.pl debian/cd-hit/usr/lib/cd-hit; make[2]: Leaving directory '/build/reproducible-path/cd-hit-4.8.1' make[1]: Leaving directory '/build/reproducible-path/cd-hit-4.8.1' dh_installdocs dh_installchangelogs dh_installexamples debian/rules override_dh_installman make[1]: Entering directory '/build/reproducible-path/cd-hit-4.8.1' mkdir -p /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1/ help2man --no-info --no-discard-stderr --version-string='4.8.1' \ --name='quickly group sequences' \ /build/reproducible-path/cd-hit-4.8.1/cd-hit > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//cd-hit.1 help2man --no-info --no-discard-stderr --version-string='4.8.1' \ --name='quickly group sequences, optimised for 454 data' \ /build/reproducible-path/cd-hit-4.8.1/cd-hit-454 > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//cd-hit-454.1 help2man --no-info --no-discard-stderr --version-string='4.8.1' \ --name='quickly group sequences in db1 or db2 format' \ /build/reproducible-path/cd-hit-4.8.1/cd-hit-2d > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//cd-hit-2d.1 help2man --no-info --no-discard-stderr --version-string='4.8.1' \ --name='run CD-HIT algorithm on RNA/DNA sequences' \ /build/reproducible-path/cd-hit-4.8.1/cd-hit-est > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//cd-hit-est.1 help2man --no-info --no-discard-stderr --version-string='4.8.1' \ --name='run CD-HIT algorithm on RNA/DNA sequences in db1 or db2 format' \ /build/reproducible-path/cd-hit-4.8.1/cd-hit-est-2d > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//cd-hit-est-2d.1 help2man --no-info --no-discard-stderr --version-string='4.8.1' \ --name='divide a big clustering job into pieces to run cd-hit-2d or cd-hit-est-2d jobs' \ /build/reproducible-path/cd-hit-4.8.1/cd-hit-2d-para.pl > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//cd-hit-2d-para.1 help2man --no-info --no-discard-stderr --version-string='4.8.1' \ --name='divide a big clustering job into pieces to run cd-hit or cd-hit-est jobs' \ /build/reproducible-path/cd-hit-4.8.1/cd-hit-para.pl > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//cd-hit-para.1 help2man --no-info --no-discard-stderr --version-string='4.8.1' \ --name='divide a FASTA file into pieces' \ /build/reproducible-path/cd-hit-4.8.1/cd-hit-div.pl > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//cd-hit-div.1 # psi-cd-hit.pl is throwing some errors which are fixed using sed # ... at least in versions <= 4.6.4 - now help2man does not work at all #help2man --no-info --no-discard-stderr --version-string='4.8.1' \ # --name='runs similar algorithm like CD-HIT but using BLAST to calculate similarities' \ # /build/reproducible-path/cd-hit-4.8.1/psi-cd-hit.pl | \ # sed -e '/^Name "main::.*" used only once:/d' \ # > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//psi-cd-hit.1 # help2man does not work at all since version 4.6.4 #help2man --no-info --no-discard-stderr --version-string='4.8.1' \ # --name='runs similar algorithm like CD-HIT but using BLAST to calculate similarities in db1 or db2 format' \ # /build/reproducible-path/cd-hit-4.8.1/psi-cd-hit-2d.pl > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//psi-cd-hit-2d.1 # FIXME: what is the difference between psi-cd-hit-2d.pl and psi-cd-hit-2d-g1.pl ? # help2man does not work at all since version 4.6.4 #help2man --no-info --no-discard-stderr --version-string='4.8.1' \ # --name='runs similar algorithm like CD-HIT but using BLAST to calculate similarities in db1 or db2 format' \ # /build/reproducible-path/cd-hit-4.8.1/psi-cd-hit-2d-g1.pl > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//psi-cd-hit-2d-g1.1 # No help output from # clstr2tree.pl # clstr_merge.pl # clstr_merge_noorder.pl # clstr_reduce.pl # clstr_renumber.pl # clstr_rev.pl # clstr_sort_by.pl # clstr_sort_prot_by # make_multi_seq # psi-cd-hit-local.pl -> even throws several "used only once: possible typo" errors make[1]: Leaving directory '/build/reproducible-path/cd-hit-4.8.1' dh_perl dh_link dh_strip_nondeterminism debian/rules override_dh_compress make[1]: Entering directory '/build/reproducible-path/cd-hit-4.8.1' dh_compress --exclude=.pdf make[1]: Leaving directory '/build/reproducible-path/cd-hit-4.8.1' dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'cd-hit' in '../cd-hit_4.8.1-4_amd64.deb'. dpkg-deb: building package 'cd-hit-dbgsym' in '../cd-hit-dbgsym_4.8.1-4_amd64.deb'. dpkg-genbuildinfo --build=binary -O../cd-hit_4.8.1-4_amd64.buildinfo dpkg-genchanges --build=binary -O../cd-hit_4.8.1-4_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/774428 and its subdirectories I: Current time: Fri Mar 27 03:49:09 -12 2026 I: pbuilder-time-stamp: 1774626549 Sat Feb 22 09:26:11 UTC 2025 I: 1st build successful. Starting 2nd build on remote node ionos1-amd64.debian.net. Sat Feb 22 09:26:11 UTC 2025 I: Preparing to do remote build '2' on ionos1-amd64.debian.net. Sat Feb 22 09:26:11 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos1-amd64.debian.net is marked as down. Sat Feb 22 09:26:11 UTC 2025 - checking via ssh if ionos1-amd64.debian.net is up. removed '/tmp/read-only-fs-test-Fcmeok' ==================================================================================== Sat Feb 22 09:26:12 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on ionos1-amd64, called using "2 cd-hit trixie /srv/reproducible-results/rbuild-debian/r-b-build.2pWVRlST 4.8.1-4" as arguments. Sat Feb 22 09:26:12 UTC 2025 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-8hTJFpOe" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Sat Feb 22 09:26:12 UTC 2025 I: Downloading source for trixie/cd-hit=4.8.1-4 Reading package lists... NOTICE: 'cd-hit' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/cd-hit.git Please use: git clone https://salsa.debian.org/med-team/cd-hit.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 956 kB of source archives. Get:1 http://deb.debian.org/debian trixie/main cd-hit 4.8.1-4 (dsc) [2032 B] Get:2 http://deb.debian.org/debian trixie/main cd-hit 4.8.1-4 (tar) [946 kB] Get:3 http://deb.debian.org/debian trixie/main cd-hit 4.8.1-4 (diff) [8128 B] Fetched 956 kB in 0s (13.8 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'cd-hit' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/cd-hit.git Please use: git clone https://salsa.debian.org/med-team/cd-hit.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 956 kB of source archives. Get:1 http://deb.debian.org/debian trixie/main cd-hit 4.8.1-4 (dsc) [2032 B] Get:2 http://deb.debian.org/debian trixie/main cd-hit 4.8.1-4 (tar) [946 kB] Get:3 http://deb.debian.org/debian trixie/main cd-hit 4.8.1-4 (diff) [8128 B] Fetched 956 kB in 0s (13.8 MB/s) Download complete and in download only mode ============================================================================= Re-Building cd-hit in trixie on amd64 on ionos1-amd64 now. Date: Sat Feb 22 09:26:12 UTC 2025 Date UTC: Sat Feb 22 09:26:12 UTC 2025 ============================================================================= ++ mktemp -t pbuilderrc_XXXX --tmpdir=/srv/reproducible-results/rbuild-debian/r-b-build.2pWVRlST + local TMPCFG=/srv/reproducible-results/rbuild-debian/r-b-build.2pWVRlST/pbuilderrc_VhO2 + case ${ARCH} in + case $ARCH in + locale=et_EE + language=et + case "${SUITE}" in + reproducible_buildflags=+all + extra_deb_build_options= + case "${SRCPACKAGE}" in + cat + echo BUILDDIR=/build/reproducible-path + '[' cd-hit = debian-installer -o cd-hit = debian-installer-netboot-images ']' + pbuilder_options=() + local pbuilder_options + DEBBUILDOPTS=-b + BINARYTARGET= + '[' cd-hit = u-boot ']' + case "${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.2pWVRlST/pbuilderrc_VhO2 --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.2pWVRlST/b2 --logfile b2/build.log cd-hit_4.8.1-4.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 23:26:12 +14 2025 I: pbuilder-time-stamp: 1740216372 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [cd-hit_4.8.1-4.dsc] I: copying [./cd-hit_4.8.1.orig.tar.gz] I: copying [./cd-hit_4.8.1-4.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./cd-hit_4.8.1-4.dsc: unsupported subcommand dpkg-source: info: extracting cd-hit in cd-hit-4.8.1 dpkg-source: info: unpacking cd-hit_4.8.1.orig.tar.gz dpkg-source: info: unpacking cd-hit_4.8.1-4.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying enable_help2man.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2775024/tmp/hooks/D01_modify_environment starting debug: Running on ionos1-amd64. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash '/bin/sh' -> '/bin/bash' lrwxrwxrwx 1 root root 9 Feb 22 09:26 /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/2775024/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/2775024/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=trixie EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=x86_64 HOST_ARCH=amd64 IFS=' ' INVOCATION_ID=a2773451605b4c26894c1550ac67c8ea 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=2775024 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.2pWVRlST/pbuilderrc_VhO2 --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.2pWVRlST/b2 --logfile b2/build.log cd-hit_4.8.1-4.dsc' SUDO_GID=110 SUDO_UID=105 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://46.16.76.132:3128 I: uname -a Linux i-capture-the-hostname 6.1.0-31-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.128-1 (2025-02-07) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin I: user script /srv/workspace/pbuilder/2775024/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), help2man, zlib1g-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19858 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 help2man; however: Package help2man is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev 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} help2man{a} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libicu72{a} liblocale-gettext-perl{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} zlib1g-dev{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, 33 newly installed, 0 to remove and 0 not upgraded. Need to get 21.7 MB of archives. After unpacking 79.9 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main amd64 liblocale-gettext-perl amd64 1.07-7+b1 [15.3 kB] Get: 2 http://deb.debian.org/debian trixie/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 3 http://deb.debian.org/debian trixie/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 4 http://deb.debian.org/debian trixie/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 5 http://deb.debian.org/debian trixie/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 6 http://deb.debian.org/debian trixie/main amd64 gettext-base amd64 0.23.1-1 [243 kB] Get: 7 http://deb.debian.org/debian trixie/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 8 http://deb.debian.org/debian trixie/main amd64 groff-base amd64 1.23.0-7 [1185 kB] Get: 9 http://deb.debian.org/debian trixie/main amd64 bsdextrautils amd64 2.40.4-3 [92.1 kB] Get: 10 http://deb.debian.org/debian trixie/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 11 http://deb.debian.org/debian trixie/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 12 http://deb.debian.org/debian trixie/main amd64 m4 amd64 1.4.19-5 [294 kB] Get: 13 http://deb.debian.org/debian trixie/main amd64 autoconf all 2.72-3 [493 kB] Get: 14 http://deb.debian.org/debian trixie/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 15 http://deb.debian.org/debian trixie/main amd64 automake all 1:1.17-3 [862 kB] Get: 16 http://deb.debian.org/debian trixie/main amd64 autopoint all 0.23.1-1 [770 kB] Get: 17 http://deb.debian.org/debian trixie/main amd64 libdebhelper-perl all 13.24.1 [90.9 kB] Get: 18 http://deb.debian.org/debian trixie/main amd64 libtool all 2.5.4-3 [539 kB] Get: 19 http://deb.debian.org/debian trixie/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 20 http://deb.debian.org/debian trixie/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 21 http://deb.debian.org/debian trixie/main amd64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 22 http://deb.debian.org/debian trixie/main amd64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 23 http://deb.debian.org/debian trixie/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 24 http://deb.debian.org/debian trixie/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 25 http://deb.debian.org/debian trixie/main amd64 libunistring5 amd64 1.3-1 [476 kB] Get: 26 http://deb.debian.org/debian trixie/main amd64 libicu72 amd64 72.1-6 [9421 kB] Get: 27 http://deb.debian.org/debian trixie/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [699 kB] Get: 28 http://deb.debian.org/debian trixie/main amd64 gettext amd64 0.23.1-1 [1680 kB] Get: 29 http://deb.debian.org/debian trixie/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 30 http://deb.debian.org/debian trixie/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 31 http://deb.debian.org/debian trixie/main amd64 debhelper all 13.24.1 [920 kB] Get: 32 http://deb.debian.org/debian trixie/main amd64 help2man amd64 1.49.3 [198 kB] Get: 33 http://deb.debian.org/debian trixie/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Fetched 21.7 MB in 2s (10.9 MB/s) Preconfiguring packages ... Selecting previously unselected package liblocale-gettext-perl. (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 ... 19858 files and directories currently installed.) Preparing to unpack .../00-liblocale-gettext-perl_1.07-7+b1_amd64.deb ... Unpacking liblocale-gettext-perl (1.07-7+b1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../02-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 .../03-libmagic1t64_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../04-file_1%3a5.45-3+b1_amd64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../05-gettext-base_0.23.1-1_amd64.deb ... Unpacking gettext-base (0.23.1-1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../06-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 .../07-groff-base_1.23.0-7_amd64.deb ... Unpacking groff-base (1.23.0-7) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../08-bsdextrautils_2.40.4-3_amd64.deb ... Unpacking bsdextrautils (2.40.4-3) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../09-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../10-man-db_2.13.0-1_amd64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../11-m4_1.4.19-5_amd64.deb ... Unpacking m4 (1.4.19-5) ... Selecting previously unselected package autoconf. Preparing to unpack .../12-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../13-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../14-automake_1%3a1.17-3_all.deb ... Unpacking automake (1:1.17-3) ... Selecting previously unselected package autopoint. Preparing to unpack .../15-autopoint_0.23.1-1_all.deb ... Unpacking autopoint (0.23.1-1) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../16-libdebhelper-perl_13.24.1_all.deb ... Unpacking libdebhelper-perl (13.24.1) ... Selecting previously unselected package libtool. Preparing to unpack .../17-libtool_2.5.4-3_all.deb ... Unpacking libtool (2.5.4-3) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../18-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../19-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 .../20-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 .../21-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 .../22-libelf1t64_0.192-4_amd64.deb ... Unpacking libelf1t64:amd64 (0.192-4) ... Selecting previously unselected package dwz. Preparing to unpack .../23-dwz_0.15-1+b1_amd64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libunistring5:amd64. Preparing to unpack .../24-libunistring5_1.3-1_amd64.deb ... Unpacking libunistring5:amd64 (1.3-1) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../25-libicu72_72.1-6_amd64.deb ... Unpacking libicu72:amd64 (72.1-6) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../26-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 .../27-gettext_0.23.1-1_amd64.deb ... Unpacking gettext (0.23.1-1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../28-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 .../29-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../30-debhelper_13.24.1_all.deb ... Unpacking debhelper (13.24.1) ... Selecting previously unselected package help2man. Preparing to unpack .../31-help2man_1.49.3_amd64.deb ... Unpacking help2man (1.49.3) ... Selecting previously unselected package zlib1g-dev:amd64. Preparing to unpack .../32-zlib1g-dev_1%3a1.3.dfsg+really1.3.1-1+b1_amd64.deb ... Unpacking zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up libpipeline1:amd64 (1.5.8-1) ... Setting up libicu72:amd64 (72.1-6) ... Setting up bsdextrautils (2.40.4-3) ... 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 zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... 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 liblocale-gettext-perl (1.07-7+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 help2man (1.49.3) ... 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/2775024/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for trixie I: user script /srv/workspace/pbuilder/2775024/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/cd-hit-4.8.1/ && 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 > ../cd-hit_4.8.1-4_source.changes dpkg-buildpackage: info: source package cd-hit dpkg-buildpackage: info: source version 4.8.1-4 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_auto_clean make -j20 clean make[1]: Entering directory '/build/reproducible-path/cd-hit-4.8.1' rm -f *.o cd-hit cd-hit-est cd-hit-2d cd-hit-est-2d cd-hit-div cd-hit-454 make[1]: Leaving directory '/build/reproducible-path/cd-hit-4.8.1' dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/cd-hit-4.8.1' dh_auto_build -- openmp=yes CC='$(CXX)' make -j20 "INSTALL=install --strip-program=true" openmp=yes CC=\$\(CXX\) make[2]: Entering directory '/build/reproducible-path/cd-hit-4.8.1' g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-common.c++ -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-utility.c++ -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit.c++ -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-est.c++ -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-2d.c++ -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-est-2d.c++ -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-div.c++ -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-454.c++ -c cdhit-utility.c++:9:79: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 9 | char cd_hit_ver[] = "\t\t====== CD-HIT version " CDHIT_VERSION " (built on " __DATE__ ") ======"; | ^~~~~~~~ cdhit-common.c++:322:23: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 322 | strcpy( date, __DATE__ ); | ^~~~~~~~ cdhit-common.c++:326:73: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 326 | printf( "Program: CD-HIT, V" CDHIT_VERSION WITH_OPENMP ", %s, " __TIME__ "\n", date ); | ^~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit.o cdhit-common.o cdhit-utility.o -Wl,-z,relro -Wl,-z,now -lz -o cd-hit g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-est.o cdhit-common.o cdhit-utility.o -Wl,-z,relro -Wl,-z,now -lz -o cd-hit-est g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-2d.o cdhit-common.o cdhit-utility.o -Wl,-z,relro -Wl,-z,now -lz -o cd-hit-2d g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-est-2d.o cdhit-common.o cdhit-utility.o -Wl,-z,relro -Wl,-z,now -lz -o cd-hit-est-2d g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-div.o cdhit-common.o cdhit-utility.o -Wl,-z,relro -Wl,-z,now -lz -o cd-hit-div g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-454.o cdhit-common.o cdhit-utility.o -Wl,-z,relro -Wl,-z,now -lz -o cd-hit-454 make[2]: Leaving directory '/build/reproducible-path/cd-hit-4.8.1' make[1]: Leaving directory '/build/reproducible-path/cd-hit-4.8.1' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_installdirs debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/cd-hit-4.8.1' dh_auto_install -- PREFIX=debian/cd-hit/usr/lib/cd-hit make -j20 install DESTDIR=/build/reproducible-path/cd-hit-4.8.1/debian/cd-hit AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" PREFIX=debian/cd-hit/usr/lib/cd-hit make[2]: Entering directory '/build/reproducible-path/cd-hit-4.8.1' for prog in cd-hit cd-hit-est cd-hit-2d cd-hit-est-2d cd-hit-div cd-hit-454; do \ install -m 0755 $prog debian/cd-hit/usr/lib/cd-hit; \ done install -m 0755 *.pl debian/cd-hit/usr/lib/cd-hit; make[2]: Leaving directory '/build/reproducible-path/cd-hit-4.8.1' make[1]: Leaving directory '/build/reproducible-path/cd-hit-4.8.1' dh_installdocs dh_installchangelogs dh_installexamples debian/rules override_dh_installman make[1]: Entering directory '/build/reproducible-path/cd-hit-4.8.1' mkdir -p /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1/ help2man --no-info --no-discard-stderr --version-string='4.8.1' \ --name='quickly group sequences' \ /build/reproducible-path/cd-hit-4.8.1/cd-hit > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//cd-hit.1 help2man --no-info --no-discard-stderr --version-string='4.8.1' \ --name='quickly group sequences, optimised for 454 data' \ /build/reproducible-path/cd-hit-4.8.1/cd-hit-454 > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//cd-hit-454.1 help2man --no-info --no-discard-stderr --version-string='4.8.1' \ --name='quickly group sequences in db1 or db2 format' \ /build/reproducible-path/cd-hit-4.8.1/cd-hit-2d > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//cd-hit-2d.1 help2man --no-info --no-discard-stderr --version-string='4.8.1' \ --name='run CD-HIT algorithm on RNA/DNA sequences' \ /build/reproducible-path/cd-hit-4.8.1/cd-hit-est > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//cd-hit-est.1 help2man --no-info --no-discard-stderr --version-string='4.8.1' \ --name='run CD-HIT algorithm on RNA/DNA sequences in db1 or db2 format' \ /build/reproducible-path/cd-hit-4.8.1/cd-hit-est-2d > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//cd-hit-est-2d.1 help2man --no-info --no-discard-stderr --version-string='4.8.1' \ --name='divide a big clustering job into pieces to run cd-hit-2d or cd-hit-est-2d jobs' \ /build/reproducible-path/cd-hit-4.8.1/cd-hit-2d-para.pl > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//cd-hit-2d-para.1 help2man --no-info --no-discard-stderr --version-string='4.8.1' \ --name='divide a big clustering job into pieces to run cd-hit or cd-hit-est jobs' \ /build/reproducible-path/cd-hit-4.8.1/cd-hit-para.pl > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//cd-hit-para.1 help2man --no-info --no-discard-stderr --version-string='4.8.1' \ --name='divide a FASTA file into pieces' \ /build/reproducible-path/cd-hit-4.8.1/cd-hit-div.pl > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//cd-hit-div.1 # psi-cd-hit.pl is throwing some errors which are fixed using sed # ... at least in versions <= 4.6.4 - now help2man does not work at all #help2man --no-info --no-discard-stderr --version-string='4.8.1' \ # --name='runs similar algorithm like CD-HIT but using BLAST to calculate similarities' \ # /build/reproducible-path/cd-hit-4.8.1/psi-cd-hit.pl | \ # sed -e '/^Name "main::.*" used only once:/d' \ # > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//psi-cd-hit.1 # help2man does not work at all since version 4.6.4 #help2man --no-info --no-discard-stderr --version-string='4.8.1' \ # --name='runs similar algorithm like CD-HIT but using BLAST to calculate similarities in db1 or db2 format' \ # /build/reproducible-path/cd-hit-4.8.1/psi-cd-hit-2d.pl > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//psi-cd-hit-2d.1 # FIXME: what is the difference between psi-cd-hit-2d.pl and psi-cd-hit-2d-g1.pl ? # help2man does not work at all since version 4.6.4 #help2man --no-info --no-discard-stderr --version-string='4.8.1' \ # --name='runs similar algorithm like CD-HIT but using BLAST to calculate similarities in db1 or db2 format' \ # /build/reproducible-path/cd-hit-4.8.1/psi-cd-hit-2d-g1.pl > /build/reproducible-path/cd-hit-4.8.1/debian/cd-hit/usr/share/man/man1//psi-cd-hit-2d-g1.1 # No help output from # clstr2tree.pl # clstr_merge.pl # clstr_merge_noorder.pl # clstr_reduce.pl # clstr_renumber.pl # clstr_rev.pl # clstr_sort_by.pl # clstr_sort_prot_by # make_multi_seq # psi-cd-hit-local.pl -> even throws several "used only once: possible typo" errors make[1]: Leaving directory '/build/reproducible-path/cd-hit-4.8.1' dh_perl dh_link dh_strip_nondeterminism debian/rules override_dh_compress make[1]: Entering directory '/build/reproducible-path/cd-hit-4.8.1' dh_compress --exclude=.pdf make[1]: Leaving directory '/build/reproducible-path/cd-hit-4.8.1' dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'cd-hit-dbgsym' in '../cd-hit-dbgsym_4.8.1-4_amd64.deb'. dpkg-deb: building package 'cd-hit' in '../cd-hit_4.8.1-4_amd64.deb'. dpkg-genbuildinfo --build=binary -O../cd-hit_4.8.1-4_amd64.buildinfo dpkg-genchanges --build=binary -O../cd-hit_4.8.1-4_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/2775024/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/2775024/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/2775024 and its subdirectories I: Current time: Sat Feb 22 23:27:55 +14 2025 I: pbuilder-time-stamp: 1740216475 + false + set +x Sat Feb 22 09:27:55 UTC 2025 I: Signing ./b2/cd-hit_4.8.1-4_amd64.buildinfo as cd-hit_4.8.1-4_amd64.buildinfo.asc Sat Feb 22 09:27:55 UTC 2025 I: Signed ./b2/cd-hit_4.8.1-4_amd64.buildinfo as ./b2/cd-hit_4.8.1-4_amd64.buildinfo.asc Sat Feb 22 09:27:55 UTC 2025 - build #2 for cd-hit/trixie/amd64 on ionos1-amd64 done. Starting cleanup. All cleanup done. Sat Feb 22 09:27:55 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-8hTJFpOe, removing. /srv/reproducible-results/rbuild-debian/r-b-build.2pWVRlST: total 44 drwxr-xr-x 2 jenkins jenkins 4096 Feb 22 09:26 b1 drwxr-xr-x 2 jenkins jenkins 4096 Feb 22 09:27 b2 -rw-r--r-- 1 jenkins jenkins 2032 Aug 20 2021 cd-hit_4.8.1-4.dsc -rw------- 1 jenkins jenkins 32249 Feb 22 09:26 rbuildlog.IzKuRsc /srv/reproducible-results/rbuild-debian/r-b-build.2pWVRlST/b1: total 2580 -rw-r--r-- 1 jenkins jenkins 28842 Feb 22 09:26 build.log -rw-r--r-- 1 jenkins jenkins 2037992 Feb 22 09:26 cd-hit-dbgsym_4.8.1-4_amd64.deb -rw-r--r-- 1 jenkins jenkins 8128 Feb 22 09:26 cd-hit_4.8.1-4.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2032 Feb 22 09:26 cd-hit_4.8.1-4.dsc -rw-r--r-- 1 jenkins jenkins 4969 Feb 22 09:26 cd-hit_4.8.1-4_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 5851 Feb 22 09:26 cd-hit_4.8.1-4_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1497 Feb 22 09:26 cd-hit_4.8.1-4_amd64.changes -rw-r--r-- 1 jenkins jenkins 522828 Feb 22 09:26 cd-hit_4.8.1-4_amd64.deb -rw-r--r-- 1 jenkins jenkins 1348 Feb 22 09:26 cd-hit_4.8.1-4_source.changes /srv/reproducible-results/rbuild-debian/r-b-build.2pWVRlST/b2: total 2572 -rw-r--r-- 1 jenkins jenkins 30765 Feb 22 09:27 build.log -rw-r--r-- 1 jenkins jenkins 2037992 Feb 22 09:27 cd-hit-dbgsym_4.8.1-4_amd64.deb -rw-r--r-- 1 jenkins jenkins 8128 Feb 22 09:27 cd-hit_4.8.1-4.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2032 Feb 22 09:27 cd-hit_4.8.1-4.dsc -rw-r--r-- 1 jenkins jenkins 4960 Feb 22 09:27 cd-hit_4.8.1-4_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 5842 Feb 22 09:27 cd-hit_4.8.1-4_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1497 Feb 22 09:27 cd-hit_4.8.1-4_amd64.changes -rw-r--r-- 1 jenkins jenkins 522828 Feb 22 09:27 cd-hit_4.8.1-4_amd64.deb -rw-r--r-- 1 jenkins jenkins 1348 Feb 22 09:27 cd-hit_4.8.1-4_source.changes Sat Feb 22 09:27:56 UTC 2025 I: Deleting $TMPDIR on ionos1-amd64.debian.net. Sat Feb 22 09:27:56 UTC 2025 I: cd-hit_4.8.1-4_amd64.changes: Format: 1.8 Date: Fri, 20 Aug 2021 10:39:56 +0200 Source: cd-hit Binary: cd-hit cd-hit-dbgsym Architecture: amd64 Version: 4.8.1-4 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Étienne Mollier Description: cd-hit - suite of programs designed to quickly group sequences Closes: 992052 Changes: cd-hit (4.8.1-4) unstable; urgency=medium . * d/watch: fix broken link to github * d/control: add myself to uploaders * d/t/run-unit-test: disable memory limits in tests (Closes: #992052) * Standards-Version: 4.6.0 (routine-update) Checksums-Sha1: 84ff5669df49a335d0b1f72fb7f2bb2ab78b96b9 2037992 cd-hit-dbgsym_4.8.1-4_amd64.deb 8c28e6de63fd86b90d3e6543e1bc44132b9fbaa9 4969 cd-hit_4.8.1-4_amd64.buildinfo f1f9b0d0ea2aa8597405c52ee5e39cee166e3b9d 522828 cd-hit_4.8.1-4_amd64.deb Checksums-Sha256: 1518e316edac0b5cc8cdb1f040f1b78a88a5742329b20ccf6aa2a626b10a901f 2037992 cd-hit-dbgsym_4.8.1-4_amd64.deb a836a9552f7b7397ee0f2f67b30ac094e33b3f7450f8a5796df69d86d889ee0a 4969 cd-hit_4.8.1-4_amd64.buildinfo 2cc1dada6bf8ccfe159fdc2c8daf99593083a4404ee425a0e93a78d9c8834a99 522828 cd-hit_4.8.1-4_amd64.deb Files: 7e3321f2bf6db13d019abb85e3753849 2037992 debug optional cd-hit-dbgsym_4.8.1-4_amd64.deb 42ffe2cd9d7eec6a80c0bdcf98deed75 4969 science optional cd-hit_4.8.1-4_amd64.buildinfo 5f47bb815ac1d877353feaf6850eab3b 522828 science optional cd-hit_4.8.1-4_amd64.deb removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/trixie/amd64/cd-hit_4.8.1-4.rbuild.log' removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/trixie/amd64/cd-hit_4.8.1-4.rbuild.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/trixie/amd64/cd-hit_4.8.1-4.build1.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/trixie/amd64/cd-hit_4.8.1-4.build2.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/buildinfo/trixie/amd64/cd-hit_4.8.1-4_amd64.buildinfo' removed '/var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/amd64/cd-hit_4.8.1-4.diff.gz' Diff of the two buildlogs: -- --- b1/build.log 2025-02-22 09:26:10.554107669 +0000 +++ b2/build.log 2025-02-22 09:27:56.225353014 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Fri Mar 27 03:48:20 -12 2026 -I: pbuilder-time-stamp: 1774626500 +I: Current time: Sat Feb 22 23:26:12 +14 2025 +I: pbuilder-time-stamp: 1740216372 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -24,52 +24,84 @@ dpkg-source: info: applying enable_help2man.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/774428/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/2775024/tmp/hooks/D01_modify_environment starting +debug: Running on ionos1-amd64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Feb 22 09:26 /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/2775024/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/2775024/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='trixie' - 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=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='40cc0020aa2d48f8af96f385fa3e3dc2' - 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='774428' - PS1='# ' - PS2='> ' + INVOCATION_ID=a2773451605b4c26894c1550ac67c8ea + 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=2775024 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.2pWVRlST/pbuilderrc_EIrO --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.2pWVRlST/b1 --logfile b1/build.log cd-hit_4.8.1-4.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.2pWVRlST/pbuilderrc_VhO2 --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.2pWVRlST/b2 --logfile b2/build.log cd-hit_4.8.1-4.dsc' + SUDO_GID=110 + SUDO_UID=105 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://46.16.76.132:3128 I: uname -a - Linux ionos5-amd64 6.12.9+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.9-1~bpo12+1 (2025-01-19) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-31-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.128-1 (2025-02-07) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/774428/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/2775024/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -142,7 +174,7 @@ Get: 31 http://deb.debian.org/debian trixie/main amd64 debhelper all 13.24.1 [920 kB] Get: 32 http://deb.debian.org/debian trixie/main amd64 help2man amd64 1.49.3 [198 kB] Get: 33 http://deb.debian.org/debian trixie/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] -Fetched 21.7 MB in 0s (92.5 MB/s) +Fetched 21.7 MB in 2s (10.9 MB/s) Preconfiguring packages ... Selecting previously unselected package liblocale-gettext-perl. (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 ... 19858 files and directories currently installed.) @@ -289,7 +321,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/cd-hit-4.8.1/ && 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 > ../cd-hit_4.8.1-4_source.changes +I: user script /srv/workspace/pbuilder/2775024/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/2775024/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/cd-hit-4.8.1/ && 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 > ../cd-hit_4.8.1-4_source.changes dpkg-buildpackage: info: source package cd-hit dpkg-buildpackage: info: source version 4.8.1-4 dpkg-buildpackage: info: source distribution unstable @@ -299,7 +335,7 @@ debian/rules clean dh clean dh_auto_clean - make -j42 clean + make -j20 clean make[1]: Entering directory '/build/reproducible-path/cd-hit-4.8.1' rm -f *.o cd-hit cd-hit-est cd-hit-2d cd-hit-est-2d cd-hit-div cd-hit-454 make[1]: Leaving directory '/build/reproducible-path/cd-hit-4.8.1' @@ -312,7 +348,7 @@ debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/cd-hit-4.8.1' dh_auto_build -- openmp=yes CC='$(CXX)' - make -j42 "INSTALL=install --strip-program=true" openmp=yes CC=\$\(CXX\) + make -j20 "INSTALL=install --strip-program=true" openmp=yes CC=\$\(CXX\) make[2]: Entering directory '/build/reproducible-path/cd-hit-4.8.1' g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-common.c++ -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-utility.c++ -c @@ -322,15 +358,15 @@ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-est-2d.c++ -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-div.c++ -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-454.c++ -c +cdhit-utility.c++:9:79: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 9 | char cd_hit_ver[] = "\t\t====== CD-HIT version " CDHIT_VERSION " (built on " __DATE__ ") ======"; + | ^~~~~~~~ cdhit-common.c++:322:23: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 322 | strcpy( date, __DATE__ ); | ^~~~~~~~ cdhit-common.c++:326:73: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 326 | printf( "Program: CD-HIT, V" CDHIT_VERSION WITH_OPENMP ", %s, " __TIME__ "\n", date ); | ^~~~~~~~ -cdhit-utility.c++:9:79: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 9 | char cd_hit_ver[] = "\t\t====== CD-HIT version " CDHIT_VERSION " (built on " __DATE__ ") ======"; - | ^~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit.o cdhit-common.o cdhit-utility.o -Wl,-z,relro -Wl,-z,now -lz -o cd-hit g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-est.o cdhit-common.o cdhit-utility.o -Wl,-z,relro -Wl,-z,now -lz -o cd-hit-est g++ -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -DWITH_ZLIB -O2 -g -O2 -ffile-prefix-map=/build/reproducible-path/cd-hit-4.8.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection cdhit-2d.o cdhit-common.o cdhit-utility.o -Wl,-z,relro -Wl,-z,now -lz -o cd-hit-2d @@ -346,7 +382,7 @@ debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/cd-hit-4.8.1' dh_auto_install -- PREFIX=debian/cd-hit/usr/lib/cd-hit - make -j42 install DESTDIR=/build/reproducible-path/cd-hit-4.8.1/debian/cd-hit AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" PREFIX=debian/cd-hit/usr/lib/cd-hit + make -j20 install DESTDIR=/build/reproducible-path/cd-hit-4.8.1/debian/cd-hit AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" PREFIX=debian/cd-hit/usr/lib/cd-hit make[2]: Entering directory '/build/reproducible-path/cd-hit-4.8.1' for prog in cd-hit cd-hit-est cd-hit-2d cd-hit-est-2d cd-hit-div cd-hit-454; do \ install -m 0755 $prog debian/cd-hit/usr/lib/cd-hit; \ @@ -429,8 +465,8 @@ dh_gencontrol dh_md5sums dh_builddeb -dpkg-deb: building package 'cd-hit' in '../cd-hit_4.8.1-4_amd64.deb'. dpkg-deb: building package 'cd-hit-dbgsym' in '../cd-hit-dbgsym_4.8.1-4_amd64.deb'. +dpkg-deb: building package 'cd-hit' in '../cd-hit_4.8.1-4_amd64.deb'. dpkg-genbuildinfo --build=binary -O../cd-hit_4.8.1-4_amd64.buildinfo dpkg-genchanges --build=binary -O../cd-hit_4.8.1-4_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -438,12 +474,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/2775024/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/2775024/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/774428 and its subdirectories -I: Current time: Fri Mar 27 03:49:09 -12 2026 -I: pbuilder-time-stamp: 1774626549 +I: removing directory /srv/workspace/pbuilder/2775024 and its subdirectories +I: Current time: Sat Feb 22 23:27:55 +14 2025 +I: pbuilder-time-stamp: 1740216475 Compressing the 2nd log... /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/amd64/cd-hit_4.8.1-4.diff: 72.4% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/amd64/cd-hit_4.8.1-4.diff.gz b2/build.log: 77.9% -- replaced with stdout Compressing the 1st log... b1/build.log: 78.7% -- replaced with stdout Sat Feb 22 09:27:57 UTC 2025 I: diffoscope 289 will be used to compare the two builds: ++ date -u +%s + DIFFOSCOPE_STAMP=/var/log/reproducible-builds/diffoscope_stamp_cd-hit_trixie_amd64_1740216477 + touch /var/log/reproducible-builds/diffoscope_stamp_cd-hit_trixie_amd64_1740216477 + RESULT=0 + systemd-run '--description=diffoscope on cd-hit/4.8.1-4 in trixie/amd64' --slice=rb-build-diffoscope.slice -u rb-diffoscope-amd64_26-32588 '--property=SuccessExitStatus=1 124' --user --send-sighup --pipe --wait -E TMPDIR timeout 155m nice schroot --directory /srv/reproducible-results/rbuild-debian/r-b-build.2pWVRlST --run-session -c jenkins-reproducible-trixie-diffoscope-24ace741-3359-46e9-b00d-29acc19b77be -- sh -c 'export TMPDIR=/srv/reproducible-results/rbuild-debian/r-b-build.2pWVRlST/dbd-tmp-NxDem2B ; timeout 150m diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.2pWVRlST/cd-hit_4.8.1-4.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.2pWVRlST/cd-hit_4.8.1-4.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.2pWVRlST/cd-hit_4.8.1-4.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.2pWVRlST/b1/cd-hit_4.8.1-4_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.2pWVRlST/b2/cd-hit_4.8.1-4_amd64.changes' + false + set +x Running as unit: rb-diffoscope-amd64_26-32588.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.2pWVRlST/cd-hit_4.8.1-4.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.2pWVRlST/cd-hit_4.8.1-4.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.2pWVRlST/cd-hit_4.8.1-4.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.2pWVRlST/b1/cd-hit_4.8.1-4_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.2pWVRlST/b2/cd-hit_4.8.1-4_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: 220ms CPU time consumed: 220ms _ _ _ _ ___ __| | | |__ (_) |_ / __/ _` |_____| '_ \| | __| | (_| (_| |_____| | | | | |_ \___\__,_| |_| |_|_|\__| Sat Feb 22 09:27:58 UTC 2025 I: diffoscope 289 found no differences in the changes files, and a .buildinfo file also exists. Sat Feb 22 09:27:58 UTC 2025 I: cd-hit from trixie built successfully and reproducibly on amd64. INSERT 0 1 INSERT 0 1 DELETE 1 [2025-02-22 09:27:58] INFO: Starting at 2025-02-22 09:27:58.816053 [2025-02-22 09:27:58] INFO: Generating the pages of 1 package(s) [2025-02-22 09:27:59] CRITICAL: https://tests.reproducible-builds.org/debian/trixie/amd64/cd-hit didn't produce a buildlog, even though it has been built. [2025-02-22 09:27:59] INFO: Finished at 2025-02-22 09:27:59.261048, took: 0:00:00.445002 Sat Feb 22 09:27:59 UTC 2025 - successfully updated the database and updated https://tests.reproducible-builds.org/debian/rb-pkg/trixie/amd64/cd-hit.html Sat Feb 22 09:27:59 UTC 2025 I: Submitting .buildinfo files to external archives: Sat Feb 22 09:27:59 UTC 2025 I: Submitting 8.0K b1/cd-hit_4.8.1-4_amd64.buildinfo.asc https://buildinfo.debian.net/8c28e6de63fd86b90d3e6543e1bc44132b9fbaa9/cd-hit_4.8.1-4_amd64 Sat Feb 22 09:28:00 UTC 2025 I: Submitting 8.0K b2/cd-hit_4.8.1-4_amd64.buildinfo.asc https://buildinfo.debian.net/4aa2c77b2e163d1b3a3b3f9b7f2acb21fbb5fa3c/cd-hit_4.8.1-4_amd64 Sat Feb 22 09:28:01 UTC 2025 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sat Feb 22 09:28:01 UTC 2025 I: Done submitting .buildinfo files. Sat Feb 22 09:28:01 UTC 2025 I: Removing signed cd-hit_4.8.1-4_amd64.buildinfo.asc files: removed './b1/cd-hit_4.8.1-4_amd64.buildinfo.asc' removed './b2/cd-hit_4.8.1-4_amd64.buildinfo.asc' 1740216481 amd64 trixie cd-hit Starting cleanup. /var/lib/jenkins/userContent/reproducible/debian/rbuild/trixie/amd64/cd-hit_4.8.1-4.rbuild.log: 75.0% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/rbuild/trixie/amd64/cd-hit_4.8.1-4.rbuild.log.gz [2025-02-22 09:28:01] INFO: Starting at 2025-02-22 09:28:01.859631 [2025-02-22 09:28:01] INFO: Generating the pages of 1 package(s) [2025-02-22 09:28:02] INFO: Finished at 2025-02-22 09:28:02.383349, took: 0:00:00.523727 All cleanup done. Sat Feb 22 09:28:02 UTC 2025 - total duration: 0h 2m 53s. Sat Feb 22 09:28:02 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-rJdTLmMV, removing. Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 2min 56.914s CPU time consumed: 7.083s