Mon Apr 15 11:01:03 UTC 2024 I: starting to build cd-hit/trixie/i386 on jenkins on '2024-04-15 11:01' Mon Apr 15 11:01:03 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_6/20099/console.log Mon Apr 15 11:01:03 UTC 2024 I: Downloading source for trixie/cd-hit=4.8.1-4 --2024-04-15 11:01:03-- http://deb.debian.org/debian/pool/main/c/cd-hit/cd-hit_4.8.1-4.dsc Connecting to 78.137.99.97:3128... 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% 266M=0s 2024-04-15 11:01:03 (266 MB/s) - ‘cd-hit_4.8.1-4.dsc’ saved [2032/2032] Mon Apr 15 11:01:03 UTC 2024 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----- Mon Apr 15 11:01:03 UTC 2024 I: Checking whether the package is not for us Mon Apr 15 11:01:03 UTC 2024 I: Starting 1st build on remote node ionos6-i386.debian.net. Mon Apr 15 11:01:03 UTC 2024 I: Preparing to do remote build '1' on ionos6-i386.debian.net. Mon Apr 15 11:01:47 UTC 2024 I: Deleting $TMPDIR on ionos6-i386.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sun May 18 05:24:07 -12 2025 I: pbuilder-time-stamp: 1747589047 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: using eatmydata during job 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 gpgv: Signature made Fri Aug 20 08:53:31 2021 gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: issuer "emollier@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./cd-hit_4.8.1-4.dsc: no acceptable signature found 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/19053/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='i386' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=22 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='5f0d493cd69046418fa1f46e884a4e1b' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' LD_LIBRARY_PATH='/usr/lib/libeatmydata' LD_PRELOAD='libeatmydata.so' 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='19053' 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.2eGhO5w6/pbuilderrc_0jnn --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.2eGhO5w6/b1 --logfile b1/build.log cd-hit_4.8.1-4.dsc' SUDO_GID='112' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://85.184.249.68:3128' I: uname -a Linux ionos6-i386 6.1.0-20-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.85-1 (2024-04-11) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 May 17 17:48 /bin -> usr/bin I: user script /srv/workspace/pbuilder/19053/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: i386 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 ... 19874 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} libelf1{a} libfile-stripnondeterminism-perl{a} libicu72{a} liblocale-gettext-perl{a} libmagic-mgc{a} libmagic1{a} libpipeline1{a} libsub-override-perl{a} libtool{a} libuchardet0{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 20.4 MB of archives. After unpacking 75.5 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main i386 liblocale-gettext-perl i386 1.07-6+b1 [15.3 kB] Get: 2 http://deb.debian.org/debian trixie/main i386 sensible-utils all 0.0.22 [22.4 kB] Get: 3 http://deb.debian.org/debian trixie/main i386 libmagic-mgc i386 1:5.45-2+b1 [314 kB] Get: 4 http://deb.debian.org/debian trixie/main i386 libmagic1 i386 1:5.45-2+b1 [114 kB] Get: 5 http://deb.debian.org/debian trixie/main i386 file i386 1:5.45-2+b1 [43.0 kB] Get: 6 http://deb.debian.org/debian trixie/main i386 gettext-base i386 0.21-14+b1 [162 kB] Get: 7 http://deb.debian.org/debian trixie/main i386 libuchardet0 i386 0.0.8-1+b1 [69.1 kB] Get: 8 http://deb.debian.org/debian trixie/main i386 groff-base i386 1.23.0-3 [1195 kB] Get: 9 http://deb.debian.org/debian trixie/main i386 bsdextrautils i386 2.39.3-6 [93.3 kB] Get: 10 http://deb.debian.org/debian trixie/main i386 libpipeline1 i386 1.5.7-2 [39.7 kB] Get: 11 http://deb.debian.org/debian trixie/main i386 man-db i386 2.12.0-3 [1413 kB] Get: 12 http://deb.debian.org/debian trixie/main i386 m4 i386 1.4.19-4 [293 kB] Get: 13 http://deb.debian.org/debian trixie/main i386 autoconf all 2.71-3 [332 kB] Get: 14 http://deb.debian.org/debian trixie/main i386 autotools-dev all 20220109.1 [51.6 kB] Get: 15 http://deb.debian.org/debian trixie/main i386 automake all 1:1.16.5-1.3 [823 kB] Get: 16 http://deb.debian.org/debian trixie/main i386 autopoint all 0.21-14 [496 kB] Get: 17 http://deb.debian.org/debian trixie/main i386 libdebhelper-perl all 13.15.3 [88.0 kB] Get: 18 http://deb.debian.org/debian trixie/main i386 libtool all 2.4.7-7 [517 kB] Get: 19 http://deb.debian.org/debian trixie/main i386 dh-autoreconf all 20 [17.1 kB] Get: 20 http://deb.debian.org/debian trixie/main i386 libarchive-zip-perl all 1.68-1 [104 kB] Get: 21 http://deb.debian.org/debian trixie/main i386 libsub-override-perl all 0.10-1 [10.6 kB] Get: 22 http://deb.debian.org/debian trixie/main i386 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 23 http://deb.debian.org/debian trixie/main i386 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 24 http://deb.debian.org/debian trixie/main i386 libelf1 i386 0.190-1+b1 [182 kB] Get: 25 http://deb.debian.org/debian trixie/main i386 dwz i386 0.15-1 [118 kB] Get: 26 http://deb.debian.org/debian trixie/main i386 libicu72 i386 72.1-4+b1 [9549 kB] Get: 27 http://deb.debian.org/debian trixie/main i386 libxml2 i386 2.9.14+dfsg-1.3+b2 [727 kB] Get: 28 http://deb.debian.org/debian trixie/main i386 gettext i386 0.21-14+b1 [1311 kB] Get: 29 http://deb.debian.org/debian trixie/main i386 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 30 http://deb.debian.org/debian trixie/main i386 po-debconf all 1.0.21+nmu1 [248 kB] Get: 31 http://deb.debian.org/debian trixie/main i386 debhelper all 13.15.3 [901 kB] Get: 32 http://deb.debian.org/debian trixie/main i386 help2man i386 1.49.3 [198 kB] Get: 33 http://deb.debian.org/debian trixie/main i386 zlib1g-dev i386 1:1.3.dfsg-3+b1 [915 kB] Fetched 20.4 MB in 0s (41.2 MB/s) debconf: delaying package configuration, since apt-utils is not installed 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 ... 19874 files and directories currently installed.) Preparing to unpack .../00-liblocale-gettext-perl_1.07-6+b1_i386.deb ... Unpacking liblocale-gettext-perl (1.07-6+b1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.22_all.deb ... Unpacking sensible-utils (0.0.22) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../02-libmagic-mgc_1%3a5.45-2+b1_i386.deb ... Unpacking libmagic-mgc (1:5.45-2+b1) ... Selecting previously unselected package libmagic1:i386. Preparing to unpack .../03-libmagic1_1%3a5.45-2+b1_i386.deb ... Unpacking libmagic1:i386 (1:5.45-2+b1) ... Selecting previously unselected package file. Preparing to unpack .../04-file_1%3a5.45-2+b1_i386.deb ... Unpacking file (1:5.45-2+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../05-gettext-base_0.21-14+b1_i386.deb ... Unpacking gettext-base (0.21-14+b1) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../06-libuchardet0_0.0.8-1+b1_i386.deb ... Unpacking libuchardet0:i386 (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../07-groff-base_1.23.0-3_i386.deb ... Unpacking groff-base (1.23.0-3) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../08-bsdextrautils_2.39.3-6_i386.deb ... Unpacking bsdextrautils (2.39.3-6) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../09-libpipeline1_1.5.7-2_i386.deb ... Unpacking libpipeline1:i386 (1.5.7-2) ... Selecting previously unselected package man-db. Preparing to unpack .../10-man-db_2.12.0-3_i386.deb ... Unpacking man-db (2.12.0-3) ... Selecting previously unselected package m4. Preparing to unpack .../11-m4_1.4.19-4_i386.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../12-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... 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%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../15-autopoint_0.21-14_all.deb ... Unpacking autopoint (0.21-14) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../16-libdebhelper-perl_13.15.3_all.deb ... Unpacking libdebhelper-perl (13.15.3) ... Selecting previously unselected package libtool. Preparing to unpack .../17-libtool_2.4.7-7_all.deb ... Unpacking libtool (2.4.7-7) ... 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 libsub-override-perl. Preparing to unpack .../20-libsub-override-perl_0.10-1_all.deb ... Unpacking libsub-override-perl (0.10-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../21-libfile-stripnondeterminism-perl_1.13.1-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.13.1-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../22-dh-strip-nondeterminism_1.13.1-1_all.deb ... Unpacking dh-strip-nondeterminism (1.13.1-1) ... Selecting previously unselected package libelf1:i386. Preparing to unpack .../23-libelf1_0.190-1+b1_i386.deb ... Unpacking libelf1:i386 (0.190-1+b1) ... Selecting previously unselected package dwz. Preparing to unpack .../24-dwz_0.15-1_i386.deb ... Unpacking dwz (0.15-1) ... Selecting previously unselected package libicu72:i386. Preparing to unpack .../25-libicu72_72.1-4+b1_i386.deb ... Unpacking libicu72:i386 (72.1-4+b1) ... Selecting previously unselected package libxml2:i386. Preparing to unpack .../26-libxml2_2.9.14+dfsg-1.3+b2_i386.deb ... Unpacking libxml2:i386 (2.9.14+dfsg-1.3+b2) ... Selecting previously unselected package gettext. Preparing to unpack .../27-gettext_0.21-14+b1_i386.deb ... Unpacking gettext (0.21-14+b1) ... 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_13.15.3_all.deb ... Unpacking debhelper (13.15.3) ... Selecting previously unselected package help2man. Preparing to unpack .../31-help2man_1.49.3_i386.deb ... Unpacking help2man (1.49.3) ... Selecting previously unselected package zlib1g-dev:i386. Preparing to unpack .../32-zlib1g-dev_1%3a1.3.dfsg-3+b1_i386.deb ... Unpacking zlib1g-dev:i386 (1:1.3.dfsg-3+b1) ... Setting up libpipeline1:i386 (1.5.7-2) ... Setting up libicu72:i386 (72.1-4+b1) ... Setting up bsdextrautils (2.39.3-6) ... Setting up libmagic-mgc (1:5.45-2+b1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.15.3) ... Setting up libmagic1:i386 (1:5.45-2+b1) ... Setting up gettext-base (0.21-14+b1) ... Setting up m4 (1.4.19-4) ... Setting up file (1:5.45-2+b1) ... Setting up autotools-dev (20220109.1) ... Setting up autopoint (0.21-14) ... Setting up autoconf (2.71-3) ... Setting up zlib1g-dev:i386 (1:1.3.dfsg-3+b1) ... Setting up sensible-utils (0.0.22) ... Setting up libuchardet0:i386 (0.0.8-1+b1) ... Setting up libsub-override-perl (0.10-1) ... Setting up libelf1:i386 (0.190-1+b1) ... Setting up libxml2:i386 (2.9.14+dfsg-1.3+b2) ... Setting up liblocale-gettext-perl (1.07-6+b1) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up gettext (0.21-14+b1) ... Setting up libtool (2.4.7-7) ... 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 (1.13.1-1) ... Setting up dwz (0.15-1) ... Setting up groff-base (1.23.0-3) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.12.0-3) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.15.3) ... Processing triggers for libc-bin (2.37-15) ... 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 i386 debian/rules clean dh clean dh_auto_clean make -j22 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 -j22 "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 -Wformat -Werror=format-security 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 -Wformat -Werror=format-security 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 -Wformat -Werror=format-security 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 -Wformat -Werror=format-security 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 -Wformat -Werror=format-security 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 -Wformat -Werror=format-security 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 -Wformat -Werror=format-security 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 -Wformat -Werror=format-security 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-common.c++: In member function 'void SequenceDB::DoClustering(const Options&)': cdhit-common.c++:3775:63: warning: format '%li' expects argument of type 'long int', but argument 2 has type 'size_t' {aka 'unsigned int'} [-Wformat=] 3775 | printf( "\nApproximated maximum memory consumption: %liM\n", mem ); | ~~^ ~~~ | | | | | size_t {aka unsigned int} | long int | %i 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 -Wformat -Werror=format-security 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 -Wformat -Werror=format-security 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 -Wformat -Werror=format-security 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 -Wformat -Werror=format-security 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 -Wformat -Werror=format-security 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 -Wformat -Werror=format-security 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 -j22 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_i386.deb'. dpkg-deb: building package 'cd-hit-dbgsym' in '../cd-hit-dbgsym_4.8.1-4_i386.deb'. dpkg-genbuildinfo --build=binary -O../cd-hit_4.8.1-4_i386.buildinfo dpkg-genchanges --build=binary -O../cd-hit_4.8.1-4_i386.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/19053 and its subdirectories I: Current time: Sun May 18 05:24:44 -12 2025 I: pbuilder-time-stamp: 1747589084 Mon Apr 15 11:01:48 UTC 2024 I: 1st build successful. Starting 2nd build on remote node ionos12-i386.debian.net. Mon Apr 15 11:01:48 UTC 2024 I: Preparing to do remote build '2' on ionos12-i386.debian.net. Mon Apr 15 11:02:43 UTC 2024 I: Deleting $TMPDIR on ionos12-i386.debian.net. Mon Apr 15 11:02:44 UTC 2024 I: cd-hit_4.8.1-4_i386.changes: Format: 1.8 Date: Fri, 20 Aug 2021 10:39:56 +0200 Source: cd-hit Binary: cd-hit cd-hit-dbgsym Architecture: i386 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: e001a7c537d2ae2b5616cf066e70b208d236b996 1848728 cd-hit-dbgsym_4.8.1-4_i386.deb d977966f4e9fecb1f6d55af003970d873da03528 5461 cd-hit_4.8.1-4_i386.buildinfo 56199250e2035ebb4d744d385e2baba89140a08e 521548 cd-hit_4.8.1-4_i386.deb Checksums-Sha256: 67506cb0c804d205638802abdeede731337f4603c04bb987555ea7c903605656 1848728 cd-hit-dbgsym_4.8.1-4_i386.deb fbc60d0efa2d7b8ef8f6fa63742476775e6f464b7ae192f18503f07fb58ef0f0 5461 cd-hit_4.8.1-4_i386.buildinfo 7df1e790c3b37bd7f567e8823ea14f87a85e3863e0ff0a51793b9bd8ef5096ca 521548 cd-hit_4.8.1-4_i386.deb Files: d4005383c4b6b1a23a34f8551fb5b796 1848728 debug optional cd-hit-dbgsym_4.8.1-4_i386.deb db56830f8766ed4194c0c1cf01747cfd 5461 science optional cd-hit_4.8.1-4_i386.buildinfo de12568aa2120f8dcfa6799e1350380d 521548 science optional cd-hit_4.8.1-4_i386.deb Mon Apr 15 11:02:45 UTC 2024 I: diffoscope 264 will be used to compare the two builds: Running as unit: rb-diffoscope-i386_6-20099.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.2eGhO5w6/cd-hit_4.8.1-4.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.2eGhO5w6/cd-hit_4.8.1-4.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.2eGhO5w6/cd-hit_4.8.1-4.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.2eGhO5w6/b1/cd-hit_4.8.1-4_i386.changes /srv/reproducible-results/rbuild-debian/r-b-build.2eGhO5w6/b2/cd-hit_4.8.1-4_i386.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.368s) 0.368s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.041s) 0.041s 12 calls diffoscope.comparators.binary.FilesystemFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 685ms CPU time consumed: 686ms Mon Apr 15 11:02:46 UTC 2024 I: diffoscope 264 found no differences in the changes files, and a .buildinfo file also exists. Mon Apr 15 11:02:46 UTC 2024 I: cd-hit from trixie built successfully and reproducibly on i386. Mon Apr 15 11:02:47 UTC 2024 I: Submitting .buildinfo files to external archives: Mon Apr 15 11:02:47 UTC 2024 I: Submitting 8.0K b1/cd-hit_4.8.1-4_i386.buildinfo.asc Mon Apr 15 11:02:49 UTC 2024 I: Submitting 8.0K b2/cd-hit_4.8.1-4_i386.buildinfo.asc Mon Apr 15 11:02:51 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Mon Apr 15 11:02:51 UTC 2024 I: Done submitting .buildinfo files. Mon Apr 15 11:02:51 UTC 2024 I: Removing signed cd-hit_4.8.1-4_i386.buildinfo.asc files: removed './b1/cd-hit_4.8.1-4_i386.buildinfo.asc' removed './b2/cd-hit_4.8.1-4_i386.buildinfo.asc'