Running as unit: rb-build-arm64_1-104123.service; invocation ID: d8cafb298e94457eb9ae41cffad86e3e ==================================================================================== Fri Oct 31 19:57:11 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job reproducible_builder_arm64_1) on jenkins, called using "codethink03-arm64 codethink04-arm64" as arguments. Fri Oct 31 19:57:11 UTC 2025 - actually running "reproducible_build.sh" (md5sum bcb6fe1b50cf4e8eedacd0971a9eb63f) as "/tmp/jenkins-script-FOqfYZIJ" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Fri Oct 31 19:57:11 UTC 2025 - checking /var/lib/jenkins/offline_nodes if codethink03-arm64.debian.net is marked as down. Fri Oct 31 19:57:11 UTC 2025 - checking via ssh if codethink03-arm64.debian.net is up. removed '/tmp/read-only-fs-test-iqCmAf' Fri Oct 31 19:57:11 UTC 2025 - checking /var/lib/jenkins/offline_nodes if codethink04-arm64.debian.net is marked as down. Fri Oct 31 19:57:11 UTC 2025 - checking via ssh if codethink04-arm64.debian.net is up. removed '/tmp/read-only-fs-test-8X9iZ6' ok, let's check if fastdnaml is building anywhere yet… ok, fastdnaml is not building anywhere… UPDATE 1 ============================================================================= Initialising reproducibly build of fastdnaml in forky on arm64 on jenkins now. 1st build will be done on codethink03-arm64.debian.net. 2nd build will be done on codethink04-arm64.debian.net. ============================================================================= Fri Oct 31 19:57:28 UTC 2025 I: starting to build fastdnaml/forky/arm64 on jenkins on '2025-10-31 19:57' Fri Oct 31 19:57:28 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_1/104123/console.log 1761940649 arm64 forky fastdnaml Fri Oct 31 19:57:29 UTC 2025 I: Downloading source for forky/fastdnaml=1.2.2-18 --2025-10-31 19:57:29-- http://deb.debian.org/debian/pool/main/f/fastdnaml/fastdnaml_1.2.2-18.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2192 (2.1K) [text/prs.lines.tag] Saving to: ‘fastdnaml_1.2.2-18.dsc’ 0K .. 100% 271M=0s 2025-10-31 19:57:29 (271 MB/s) - ‘fastdnaml_1.2.2-18.dsc’ saved [2192/2192] --2025-10-31 19:57:29-- http://deb.debian.org/debian/pool/main/f/fastdnaml/fastdnaml_1.2.2-18.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2192 (2.1K) [text/prs.lines.tag] Saving to: ‘fastdnaml_1.2.2-18.dsc’ 0K .. 100% 271M=0s 2025-10-31 19:57:29 (271 MB/s) - ‘fastdnaml_1.2.2-18.dsc’ saved [2192/2192] Fri Oct 31 19:57:29 UTC 2025 I: fastdnaml_1.2.2-18.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: fastdnaml Binary: fastdnaml Architecture: any Version: 1.2.2-18 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Charles Plessy , Étienne Mollier Homepage: https://www.life.illinois.edu/gary/programs/fastDNAml.html Standards-Version: 4.7.2 Vcs-Browser: https://salsa.debian.org/med-team/fastdnaml Vcs-Git: https://salsa.debian.org/med-team/fastdnaml.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13) Package-List: fastdnaml deb science optional arch=any Checksums-Sha1: 78197cbd760163f65085ac80c36d4286a1f29e34 70005 fastdnaml_1.2.2.orig.tar.gz b4e0d40bef01becd3c44a74f38527c955a593a7c 9808 fastdnaml_1.2.2-18.debian.tar.xz Checksums-Sha256: 34690ec9a8e2fe1d86bea4a7cb10f7bc47e5e4c30719e1c9451210df4f160180 70005 fastdnaml_1.2.2.orig.tar.gz c075531de338aba42de6193d73e6b8d776f6d01b66bb1d7a55685f952f15d800 9808 fastdnaml_1.2.2-18.debian.tar.xz Files: dd9c737e0f433879500391d0e229f763 70005 fastdnaml_1.2.2.orig.tar.gz da574961503f9ba141553a93fb25c47b 9808 fastdnaml_1.2.2-18.debian.tar.xz Dgit: 0915a53d1881c4fd2a080d9ec0efca6f87e5b3db debian archive/debian/1.2.2-18 https://git.dgit.debian.org/fastdnaml -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmfEKSsUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdrMhg/+IoVMLp64KlbXd+wrOpCwEXh+LE+h FQprgBOrCQA9fSzDcLe4p5pxaMHQ9U3DKT0O5B3inFzPVbtBzKOVZcUn3w7j1Jqx +rXhbSncXyn4fiPxJxlMOGBlfnWw4x2Gsg+j6eEvIIAH06GwnLALfkGodJl/fMvv z8ICWlV2VtIkqVucd6naG5KxQJQf/8DjDHMsqoF060BWXjSdtGukhO5OCygfwsgW ghnkKlvVNa26Sr9df8lg9DGifl867RqTZFQfio08YuNH5JTVYonWF9KFNAb4ns6u Z9UlMTAnKL92i9H0eSKLv9pRVDG/rRRi7COe7opc+JD8+3bu837Uqji2NEyVbaEX Qbx4BqfYB9EX0ImON1rrBfuw+IpjKi6KBgrRLxBu/HwcLebTUAm+PcBZQB8UIE6U jt5DGrOcnb3rSdlbRKz6vd/qb6Oxt++QNjq5Uze/0yoRwKIOgaYTTO+FLrivf85T FLdbvWIIdTlpfIa9dXSEXqh0WUKQe+QGSMq5lV/w7vtPSkvIyIQtLCxOern3o8rY IX1sDnLzi9TrBJ5SiYU+JQ5sBd214lEuxQshAaeS4IM+O5nTbXRvCw+dusb3Px9z 0ypEKYicdZWYHcw/vsW5r6u1zlTOdeACaNFceG6fTInWcQjEbPYZ93O0kNamlPBg 8/+VNIdqqNXYjGA= =p7r5 -----END PGP SIGNATURE----- Fri Oct 31 19:57:29 UTC 2025 I: Checking whether the package is not for us Fri Oct 31 19:57:29 UTC 2025 I: Starting 1st build on remote node codethink03-arm64.debian.net. Fri Oct 31 19:57:29 UTC 2025 I: Preparing to do remote build '1' on codethink03-arm64.debian.net. Fri Oct 31 19:57:29 UTC 2025 - checking /var/lib/jenkins/offline_nodes if codethink03-arm64.debian.net is marked as down. Fri Oct 31 19:57:29 UTC 2025 - checking via ssh if codethink03-arm64.debian.net is up. removed '/tmp/read-only-fs-test-cJjzjI' ==================================================================================== Fri Dec 4 02:20:30 UTC 2026 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on codethink03-arm64, called using "1 fastdnaml forky /srv/reproducible-results/rbuild-debian/r-b-build.Ud7x5N5x 1.2.2-18" as arguments. Fri Dec 4 02:20:30 UTC 2026 - actually running "reproducible_build.sh" (md5sum bcb6fe1b50cf4e8eedacd0971a9eb63f) as "/tmp/jenkins-script-UD727aYa" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Fri Dec 4 02:20:30 UTC 2026 I: Downloading source for forky/fastdnaml=1.2.2-18 Reading package lists... NOTICE: 'fastdnaml' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/fastdnaml.git Please use: git clone https://salsa.debian.org/med-team/fastdnaml.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 82.0 kB of source archives. Get:1 http://deb.debian.org/debian forky/main fastdnaml 1.2.2-18 (dsc) [2192 B] Get:2 http://deb.debian.org/debian forky/main fastdnaml 1.2.2-18 (tar) [70.0 kB] Get:3 http://deb.debian.org/debian forky/main fastdnaml 1.2.2-18 (diff) [9808 B] Fetched 82.0 kB in 0s (2136 kB/s) Download complete and in download only mode Reading package lists... NOTICE: 'fastdnaml' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/fastdnaml.git Please use: git clone https://salsa.debian.org/med-team/fastdnaml.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 82.0 kB of source archives. Get:1 http://deb.debian.org/debian forky/main fastdnaml 1.2.2-18 (dsc) [2192 B] Get:2 http://deb.debian.org/debian forky/main fastdnaml 1.2.2-18 (tar) [70.0 kB] Get:3 http://deb.debian.org/debian forky/main fastdnaml 1.2.2-18 (diff) [9808 B] Fetched 82.0 kB in 0s (2136 kB/s) Download complete and in download only mode ============================================================================= Building fastdnaml in forky on arm64 on codethink03-arm64 now. Date: Fri Dec 4 02:20:30 GMT 2026 Date UTC: Fri Dec 4 02:20:30 UTC 2026 ============================================================================= W: /root/.pbuilderrc does not exist I: Logging to b1/build.log I: pbuilder: network access will be disabled during build I: Current time: Thu Dec 3 14:20:31 -12 2026 I: pbuilder-time-stamp: 1796350831 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-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 [fastdnaml_1.2.2-18.dsc] I: copying [./fastdnaml_1.2.2.orig.tar.gz] I: copying [./fastdnaml_1.2.2-18.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./fastdnaml_1.2.2-18.dsc: no acceptable signature found dpkg-source: info: extracting fastdnaml in fastdnaml-1.2.2 dpkg-source: info: unpacking fastdnaml_1.2.2.orig.tar.gz dpkg-source: info: unpacking fastdnaml_1.2.2-18.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying Makefile.patch dpkg-source: info: applying scripts.patch dpkg-source: info: applying hardening.patch dpkg-source: info: applying cross.patch dpkg-source: info: applying fixup-implicit-function-declaration.patch dpkg-source: info: applying gcc-14.patch dpkg-source: info: applying gcc-15.patch dpkg-source: info: applying fortify.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1874354/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='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='forky' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='a403199b6c704f42b9e2f583a42ca8a8' 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='1874354' 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.Ud7x5N5x/pbuilderrc_4vg3 --distribution forky --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.Ud7x5N5x/b1 --logfile b1/build.log fastdnaml_1.2.2-18.dsc' SUDO_GID='109' SUDO_HOME='/var/lib/jenkins' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink03-arm64 6.12.48+deb13-cloud-arm64 #1 SMP Debian 6.12.48-1 (2025-09-20) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin I: user script /srv/workspace/pbuilder/1874354/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: arm64 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) dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19971 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. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libtool{a} libuchardet0{a} libunistring5{a} libxml2-16{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 29 newly installed, 0 to remove and 0 not upgraded. Need to get 11.0 MB of archives. After unpacking 45.0 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian forky/main arm64 sensible-utils all 0.0.26 [27.0 kB] Get: 2 http://deb.debian.org/debian forky/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Get: 3 http://deb.debian.org/debian forky/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Get: 4 http://deb.debian.org/debian forky/main arm64 file arm64 1:5.46-5 [43.7 kB] Get: 5 http://deb.debian.org/debian forky/main arm64 gettext-base arm64 0.23.1-2+b1 [241 kB] Get: 6 http://deb.debian.org/debian forky/main arm64 libuchardet0 arm64 0.0.8-2 [69.0 kB] Get: 7 http://deb.debian.org/debian forky/main arm64 groff-base arm64 1.23.0-9 [1130 kB] Get: 8 http://deb.debian.org/debian forky/main arm64 bsdextrautils arm64 2.41.2-4 [97.3 kB] Get: 9 http://deb.debian.org/debian forky/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 10 http://deb.debian.org/debian forky/main arm64 man-db arm64 2.13.1-1 [1453 kB] Get: 11 http://deb.debian.org/debian forky/main arm64 m4 arm64 1.4.20-2 [315 kB] Get: 12 http://deb.debian.org/debian forky/main arm64 autoconf all 2.72-3.1 [494 kB] Get: 13 http://deb.debian.org/debian forky/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get: 14 http://deb.debian.org/debian forky/main arm64 automake all 1:1.18.1-2 [877 kB] Get: 15 http://deb.debian.org/debian forky/main arm64 autopoint all 0.23.1-2 [770 kB] Get: 16 http://deb.debian.org/debian forky/main arm64 libdebhelper-perl all 13.28 [92.4 kB] Get: 17 http://deb.debian.org/debian forky/main arm64 libtool all 2.5.4-7 [540 kB] Get: 18 http://deb.debian.org/debian forky/main arm64 dh-autoreconf all 21 [12.2 kB] Get: 19 http://deb.debian.org/debian forky/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian forky/main arm64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get: 21 http://deb.debian.org/debian forky/main arm64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get: 22 http://deb.debian.org/debian forky/main arm64 libelf1t64 arm64 0.193-3 [189 kB] Get: 23 http://deb.debian.org/debian forky/main arm64 dwz arm64 0.16-2 [100 kB] Get: 24 http://deb.debian.org/debian forky/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get: 25 http://deb.debian.org/debian forky/main arm64 libxml2-16 arm64 2.14.6+dfsg-0.1 [601 kB] Get: 26 http://deb.debian.org/debian forky/main arm64 gettext arm64 0.23.1-2+b1 [1612 kB] Get: 27 http://deb.debian.org/debian forky/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian forky/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian forky/main arm64 debhelper all 13.28 [941 kB] Fetched 11.0 MB in 0s (75.2 MB/s) Preconfiguring packages ... Selecting previously unselected package sensible-utils. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19971 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.26_all.deb ... Unpacking sensible-utils (0.0.26) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.46-5_arm64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../02-libmagic1t64_1%3a5.46-5_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.46-5) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.46-5_arm64.deb ... Unpacking file (1:5.46-5) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.23.1-2+b1_arm64.deb ... Unpacking gettext-base (0.23.1-2+b1) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../05-libuchardet0_0.0.8-2_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-2) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-9_arm64.deb ... Unpacking groff-base (1.23.0-9) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.41.2-4_arm64.deb ... Unpacking bsdextrautils (2.41.2-4) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../08-libpipeline1_1.5.8-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.13.1-1_arm64.deb ... Unpacking man-db (2.13.1-1) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.20-2_arm64.deb ... Unpacking m4 (1.4.20-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.72-3.1_all.deb ... Unpacking autoconf (2.72-3.1) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20240727.1_all.deb ... Unpacking autotools-dev (20240727.1) ... Selecting previously unselected package automake. Preparing to unpack .../13-automake_1%3a1.18.1-2_all.deb ... Unpacking automake (1:1.18.1-2) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_0.23.1-2_all.deb ... Unpacking autopoint (0.23.1-2) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.28_all.deb ... Unpacking libdebhelper-perl (13.28) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.5.4-7_all.deb ... Unpacking libtool (2.5.4-7) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../17-dh-autoreconf_21_all.deb ... Unpacking dh-autoreconf (21) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../18-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../19-libfile-stripnondeterminism-perl_1.15.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.15.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../20-dh-strip-nondeterminism_1.15.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.15.0-1) ... Selecting previously unselected package libelf1t64:arm64. Preparing to unpack .../21-libelf1t64_0.193-3_arm64.deb ... Unpacking libelf1t64:arm64 (0.193-3) ... Selecting previously unselected package dwz. Preparing to unpack .../22-dwz_0.16-2_arm64.deb ... Unpacking dwz (0.16-2) ... Selecting previously unselected package libunistring5:arm64. Preparing to unpack .../23-libunistring5_1.3-2_arm64.deb ... Unpacking libunistring5:arm64 (1.3-2) ... Selecting previously unselected package libxml2-16:arm64. Preparing to unpack .../24-libxml2-16_2.14.6+dfsg-0.1_arm64.deb ... Unpacking libxml2-16:arm64 (2.14.6+dfsg-0.1) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_0.23.1-2+b1_arm64.deb ... Unpacking gettext (0.23.1-2+b1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../26-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 .../27-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../28-debhelper_13.28_all.deb ... Unpacking debhelper (13.28) ... Setting up libpipeline1:arm64 (1.5.8-1) ... Setting up bsdextrautils (2.41.2-4) ... Setting up libmagic-mgc (1:5.46-5) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libxml2-16:arm64 (2.14.6+dfsg-0.1) ... Setting up libdebhelper-perl (13.28) ... Setting up libmagic1t64:arm64 (1:5.46-5) ... Setting up gettext-base (0.23.1-2+b1) ... Setting up m4 (1.4.20-2) ... Setting up file (1:5.46-5) ... Setting up libelf1t64:arm64 (0.193-3) ... Setting up autotools-dev (20240727.1) ... Setting up libunistring5:arm64 (1.3-2) ... Setting up autopoint (0.23.1-2) ... Setting up autoconf (2.72-3.1) ... Setting up dwz (0.16-2) ... Setting up sensible-utils (0.0.26) ... Setting up libuchardet0:arm64 (0.0.8-2) ... Setting up automake (1:1.18.1-2) ... update-alternatives: using /usr/bin/automake-1.18 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.15.0-1) ... Setting up gettext (0.23.1-2+b1) ... Setting up libtool (2.5.4-7) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (21) ... Setting up dh-strip-nondeterminism (1.15.0-1) ... Setting up groff-base (1.23.0-9) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.28) ... Processing triggers for libc-bin (2.41-12) ... 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/fastdnaml-1.2.2/ && 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 > ../fastdnaml_1.2.2-18_source.changes dpkg-buildpackage: info: source package fastdnaml dpkg-buildpackage: info: source version 1.2.2-18 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean dh_auto_clean make -j12 clean make[1]: Entering directory '/build/reproducible-path/fastdnaml-1.2.2' (cd source; rm -f *.o fastDNAml) rm -rf tests rm -f checkpoint.* make[1]: Leaving directory '/build/reproducible-path/fastdnaml-1.2.2' debian/rules override_dh_clean make[1]: Entering directory '/build/reproducible-path/fastdnaml-1.2.2' dh_clean rm -fr source/fastDNAml make[1]: Leaving directory '/build/reproducible-path/fastdnaml-1.2.2' debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure dh_auto_build make -j12 INSTALL="install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/fastdnaml-1.2.2' cd source && cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/fastdnaml-1.2.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard fastDNAml.c -o fastDNAml -lm -Wl,-z,relro -Wl,-z,now fastDNAml.c: In function 'processTreeCom': fastDNAml.c:3957:12: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 3957 | (void) fscanf(fp, " p%nhylip_tree(%n", & text_started, & functor_read); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fastDNAml.c:3959:14: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 3959 | (void) fscanf(fp, "seudoNewick(%n", & functor_read); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fastDNAml.c:3967:12: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 3967 | (void) fscanf(fp, " [%n", & com_open); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fastDNAml.c:3985:32: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 3985 | if (functor_read) (void) fscanf(fp, " ,"); /* remove trailing comma */ | ^~~~~~~~~~~~~~~~ make[1]: Leaving directory '/build/reproducible-path/fastdnaml-1.2.2' 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/fastdnaml-1.2.2' # do nothing make[1]: Leaving directory '/build/reproducible-path/fastdnaml-1.2.2' debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/fastdnaml-1.2.2' dh_install cp -a docs/fastDNAml_doc_1.2.txt `pwd`/debian/`dh_listpackages`/usr/share/`dh_listpackages`/fastdnaml_help # the scripts have to be executable thus mentioning these in debian/install is not enough cp -a scripts/* `pwd`/debian/`dh_listpackages`/usr/lib/`dh_listpackages`/bin chmod 755 `pwd`/debian/`dh_listpackages`/usr/lib/`dh_listpackages`/bin/* make[1]: Leaving directory '/build/reproducible-path/fastdnaml-1.2.2' dh_installdocs dh_installchangelogs dh_installexamples dh_installman dh_installmenu dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'fastdnaml' in '../fastdnaml_1.2.2-18_arm64.deb'. dpkg-deb: building package 'fastdnaml-dbgsym' in '../fastdnaml-dbgsym_1.2.2-18_arm64.deb'. dpkg-genbuildinfo --build=binary -O../fastdnaml_1.2.2-18_arm64.buildinfo dpkg-genchanges --build=binary -O../fastdnaml_1.2.2-18_arm64.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/1874354 and its subdirectories I: Current time: Thu Dec 3 14:20:55 -12 2026 I: pbuilder-time-stamp: 1796350855 Fri Dec 4 02:20:56 UTC 2026 I: Signing ./b1/fastdnaml_1.2.2-18_arm64.buildinfo as fastdnaml_1.2.2-18_arm64.buildinfo.asc Fri Dec 4 02:20:56 UTC 2026 I: Signed ./b1/fastdnaml_1.2.2-18_arm64.buildinfo as ./b1/fastdnaml_1.2.2-18_arm64.buildinfo.asc Fri Dec 4 02:20:56 UTC 2026 - build #1 for fastdnaml/forky/arm64 on codethink03-arm64 done. Starting cleanup. All cleanup done. Fri Dec 4 02:20:56 UTC 2026 - reproducible_build.sh stopped running as /tmp/jenkins-script-UD727aYa, removing. /srv/reproducible-results/rbuild-debian/r-b-build.Ud7x5N5x: total 16 drwxrwxr-x 2 jenkins jenkins 4096 Oct 31 19:57 b1 drwxrwxr-x 2 jenkins jenkins 4096 Oct 31 19:57 b2 -rw-rw-r-- 1 jenkins jenkins 2192 Mar 2 2025 fastdnaml_1.2.2-18.dsc -rw------- 1 jenkins jenkins 3315 Oct 31 19:57 rbuildlog.lcLBPRF /srv/reproducible-results/rbuild-debian/r-b-build.Ud7x5N5x/b1: total 196 -rw-r--r-- 1 jenkins jenkins 20437 Oct 31 19:57 build.log -rw-r--r-- 1 jenkins jenkins 77724 Oct 31 19:57 fastdnaml-dbgsym_1.2.2-18_arm64.deb -rw-r--r-- 1 jenkins jenkins 9808 Oct 31 19:57 fastdnaml_1.2.2-18.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2192 Oct 31 19:57 fastdnaml_1.2.2-18.dsc -rw-r--r-- 1 jenkins jenkins 4755 Oct 31 19:57 fastdnaml_1.2.2-18_arm64.buildinfo -rw-rw-r-- 1 jenkins jenkins 5637 Oct 31 19:57 fastdnaml_1.2.2-18_arm64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1761 Oct 31 19:57 fastdnaml_1.2.2-18_arm64.changes -rw-r--r-- 1 jenkins jenkins 57456 Oct 31 19:57 fastdnaml_1.2.2-18_arm64.deb -rw-r--r-- 1 jenkins jenkins 1608 Oct 31 19:57 fastdnaml_1.2.2-18_source.changes /srv/reproducible-results/rbuild-debian/r-b-build.Ud7x5N5x/b2: total 0 Fri Oct 31 19:57:56 UTC 2025 I: Deleting $TMPDIR on codethink03-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Thu Dec 3 14:20:31 -12 2026 I: pbuilder-time-stamp: 1796350831 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-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 [fastdnaml_1.2.2-18.dsc] I: copying [./fastdnaml_1.2.2.orig.tar.gz] I: copying [./fastdnaml_1.2.2-18.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./fastdnaml_1.2.2-18.dsc: no acceptable signature found dpkg-source: info: extracting fastdnaml in fastdnaml-1.2.2 dpkg-source: info: unpacking fastdnaml_1.2.2.orig.tar.gz dpkg-source: info: unpacking fastdnaml_1.2.2-18.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying Makefile.patch dpkg-source: info: applying scripts.patch dpkg-source: info: applying hardening.patch dpkg-source: info: applying cross.patch dpkg-source: info: applying fixup-implicit-function-declaration.patch dpkg-source: info: applying gcc-14.patch dpkg-source: info: applying gcc-15.patch dpkg-source: info: applying fortify.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1874354/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='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='forky' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='a403199b6c704f42b9e2f583a42ca8a8' 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='1874354' 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.Ud7x5N5x/pbuilderrc_4vg3 --distribution forky --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.Ud7x5N5x/b1 --logfile b1/build.log fastdnaml_1.2.2-18.dsc' SUDO_GID='109' SUDO_HOME='/var/lib/jenkins' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink03-arm64 6.12.48+deb13-cloud-arm64 #1 SMP Debian 6.12.48-1 (2025-09-20) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin I: user script /srv/workspace/pbuilder/1874354/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: arm64 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) dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19971 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. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libtool{a} libuchardet0{a} libunistring5{a} libxml2-16{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 29 newly installed, 0 to remove and 0 not upgraded. Need to get 11.0 MB of archives. After unpacking 45.0 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian forky/main arm64 sensible-utils all 0.0.26 [27.0 kB] Get: 2 http://deb.debian.org/debian forky/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Get: 3 http://deb.debian.org/debian forky/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Get: 4 http://deb.debian.org/debian forky/main arm64 file arm64 1:5.46-5 [43.7 kB] Get: 5 http://deb.debian.org/debian forky/main arm64 gettext-base arm64 0.23.1-2+b1 [241 kB] Get: 6 http://deb.debian.org/debian forky/main arm64 libuchardet0 arm64 0.0.8-2 [69.0 kB] Get: 7 http://deb.debian.org/debian forky/main arm64 groff-base arm64 1.23.0-9 [1130 kB] Get: 8 http://deb.debian.org/debian forky/main arm64 bsdextrautils arm64 2.41.2-4 [97.3 kB] Get: 9 http://deb.debian.org/debian forky/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 10 http://deb.debian.org/debian forky/main arm64 man-db arm64 2.13.1-1 [1453 kB] Get: 11 http://deb.debian.org/debian forky/main arm64 m4 arm64 1.4.20-2 [315 kB] Get: 12 http://deb.debian.org/debian forky/main arm64 autoconf all 2.72-3.1 [494 kB] Get: 13 http://deb.debian.org/debian forky/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get: 14 http://deb.debian.org/debian forky/main arm64 automake all 1:1.18.1-2 [877 kB] Get: 15 http://deb.debian.org/debian forky/main arm64 autopoint all 0.23.1-2 [770 kB] Get: 16 http://deb.debian.org/debian forky/main arm64 libdebhelper-perl all 13.28 [92.4 kB] Get: 17 http://deb.debian.org/debian forky/main arm64 libtool all 2.5.4-7 [540 kB] Get: 18 http://deb.debian.org/debian forky/main arm64 dh-autoreconf all 21 [12.2 kB] Get: 19 http://deb.debian.org/debian forky/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian forky/main arm64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get: 21 http://deb.debian.org/debian forky/main arm64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get: 22 http://deb.debian.org/debian forky/main arm64 libelf1t64 arm64 0.193-3 [189 kB] Get: 23 http://deb.debian.org/debian forky/main arm64 dwz arm64 0.16-2 [100 kB] Get: 24 http://deb.debian.org/debian forky/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get: 25 http://deb.debian.org/debian forky/main arm64 libxml2-16 arm64 2.14.6+dfsg-0.1 [601 kB] Get: 26 http://deb.debian.org/debian forky/main arm64 gettext arm64 0.23.1-2+b1 [1612 kB] Get: 27 http://deb.debian.org/debian forky/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian forky/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian forky/main arm64 debhelper all 13.28 [941 kB] Fetched 11.0 MB in 0s (75.2 MB/s) Preconfiguring packages ... Selecting previously unselected package sensible-utils. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19971 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.26_all.deb ... Unpacking sensible-utils (0.0.26) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.46-5_arm64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../02-libmagic1t64_1%3a5.46-5_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.46-5) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.46-5_arm64.deb ... Unpacking file (1:5.46-5) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.23.1-2+b1_arm64.deb ... Unpacking gettext-base (0.23.1-2+b1) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../05-libuchardet0_0.0.8-2_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-2) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-9_arm64.deb ... Unpacking groff-base (1.23.0-9) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.41.2-4_arm64.deb ... Unpacking bsdextrautils (2.41.2-4) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../08-libpipeline1_1.5.8-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.13.1-1_arm64.deb ... Unpacking man-db (2.13.1-1) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.20-2_arm64.deb ... Unpacking m4 (1.4.20-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.72-3.1_all.deb ... Unpacking autoconf (2.72-3.1) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20240727.1_all.deb ... Unpacking autotools-dev (20240727.1) ... Selecting previously unselected package automake. Preparing to unpack .../13-automake_1%3a1.18.1-2_all.deb ... Unpacking automake (1:1.18.1-2) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_0.23.1-2_all.deb ... Unpacking autopoint (0.23.1-2) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.28_all.deb ... Unpacking libdebhelper-perl (13.28) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.5.4-7_all.deb ... Unpacking libtool (2.5.4-7) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../17-dh-autoreconf_21_all.deb ... Unpacking dh-autoreconf (21) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../18-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../19-libfile-stripnondeterminism-perl_1.15.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.15.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../20-dh-strip-nondeterminism_1.15.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.15.0-1) ... Selecting previously unselected package libelf1t64:arm64. Preparing to unpack .../21-libelf1t64_0.193-3_arm64.deb ... Unpacking libelf1t64:arm64 (0.193-3) ... Selecting previously unselected package dwz. Preparing to unpack .../22-dwz_0.16-2_arm64.deb ... Unpacking dwz (0.16-2) ... Selecting previously unselected package libunistring5:arm64. Preparing to unpack .../23-libunistring5_1.3-2_arm64.deb ... Unpacking libunistring5:arm64 (1.3-2) ... Selecting previously unselected package libxml2-16:arm64. Preparing to unpack .../24-libxml2-16_2.14.6+dfsg-0.1_arm64.deb ... Unpacking libxml2-16:arm64 (2.14.6+dfsg-0.1) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_0.23.1-2+b1_arm64.deb ... Unpacking gettext (0.23.1-2+b1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../26-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 .../27-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../28-debhelper_13.28_all.deb ... Unpacking debhelper (13.28) ... Setting up libpipeline1:arm64 (1.5.8-1) ... Setting up bsdextrautils (2.41.2-4) ... Setting up libmagic-mgc (1:5.46-5) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libxml2-16:arm64 (2.14.6+dfsg-0.1) ... Setting up libdebhelper-perl (13.28) ... Setting up libmagic1t64:arm64 (1:5.46-5) ... Setting up gettext-base (0.23.1-2+b1) ... Setting up m4 (1.4.20-2) ... Setting up file (1:5.46-5) ... Setting up libelf1t64:arm64 (0.193-3) ... Setting up autotools-dev (20240727.1) ... Setting up libunistring5:arm64 (1.3-2) ... Setting up autopoint (0.23.1-2) ... Setting up autoconf (2.72-3.1) ... Setting up dwz (0.16-2) ... Setting up sensible-utils (0.0.26) ... Setting up libuchardet0:arm64 (0.0.8-2) ... Setting up automake (1:1.18.1-2) ... update-alternatives: using /usr/bin/automake-1.18 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.15.0-1) ... Setting up gettext (0.23.1-2+b1) ... Setting up libtool (2.5.4-7) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (21) ... Setting up dh-strip-nondeterminism (1.15.0-1) ... Setting up groff-base (1.23.0-9) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.28) ... Processing triggers for libc-bin (2.41-12) ... 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/fastdnaml-1.2.2/ && 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 > ../fastdnaml_1.2.2-18_source.changes dpkg-buildpackage: info: source package fastdnaml dpkg-buildpackage: info: source version 1.2.2-18 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean dh_auto_clean make -j12 clean make[1]: Entering directory '/build/reproducible-path/fastdnaml-1.2.2' (cd source; rm -f *.o fastDNAml) rm -rf tests rm -f checkpoint.* make[1]: Leaving directory '/build/reproducible-path/fastdnaml-1.2.2' debian/rules override_dh_clean make[1]: Entering directory '/build/reproducible-path/fastdnaml-1.2.2' dh_clean rm -fr source/fastDNAml make[1]: Leaving directory '/build/reproducible-path/fastdnaml-1.2.2' debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure dh_auto_build make -j12 INSTALL="install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/fastdnaml-1.2.2' cd source && cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/fastdnaml-1.2.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard fastDNAml.c -o fastDNAml -lm -Wl,-z,relro -Wl,-z,now fastDNAml.c: In function 'processTreeCom': fastDNAml.c:3957:12: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 3957 | (void) fscanf(fp, " p%nhylip_tree(%n", & text_started, & functor_read); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fastDNAml.c:3959:14: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 3959 | (void) fscanf(fp, "seudoNewick(%n", & functor_read); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fastDNAml.c:3967:12: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 3967 | (void) fscanf(fp, " [%n", & com_open); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fastDNAml.c:3985:32: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 3985 | if (functor_read) (void) fscanf(fp, " ,"); /* remove trailing comma */ | ^~~~~~~~~~~~~~~~ make[1]: Leaving directory '/build/reproducible-path/fastdnaml-1.2.2' 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/fastdnaml-1.2.2' # do nothing make[1]: Leaving directory '/build/reproducible-path/fastdnaml-1.2.2' debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/fastdnaml-1.2.2' dh_install cp -a docs/fastDNAml_doc_1.2.txt `pwd`/debian/`dh_listpackages`/usr/share/`dh_listpackages`/fastdnaml_help # the scripts have to be executable thus mentioning these in debian/install is not enough cp -a scripts/* `pwd`/debian/`dh_listpackages`/usr/lib/`dh_listpackages`/bin chmod 755 `pwd`/debian/`dh_listpackages`/usr/lib/`dh_listpackages`/bin/* make[1]: Leaving directory '/build/reproducible-path/fastdnaml-1.2.2' dh_installdocs dh_installchangelogs dh_installexamples dh_installman dh_installmenu dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'fastdnaml' in '../fastdnaml_1.2.2-18_arm64.deb'. dpkg-deb: building package 'fastdnaml-dbgsym' in '../fastdnaml-dbgsym_1.2.2-18_arm64.deb'. dpkg-genbuildinfo --build=binary -O../fastdnaml_1.2.2-18_arm64.buildinfo dpkg-genchanges --build=binary -O../fastdnaml_1.2.2-18_arm64.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/1874354 and its subdirectories I: Current time: Thu Dec 3 14:20:55 -12 2026 I: pbuilder-time-stamp: 1796350855 Fri Oct 31 19:57:57 UTC 2025 I: 1st build successful. Starting 2nd build on remote node codethink04-arm64.debian.net. Fri Oct 31 19:57:57 UTC 2025 I: Preparing to do remote build '2' on codethink04-arm64.debian.net. Fri Oct 31 19:57:57 UTC 2025 - checking /var/lib/jenkins/offline_nodes if codethink04-arm64.debian.net is marked as down. Fri Oct 31 19:57:57 UTC 2025 - checking via ssh if codethink04-arm64.debian.net is up. removed '/tmp/read-only-fs-test-CrvUSf' ==================================================================================== Fri Oct 31 19:57:58 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on codethink04-arm64, called using "2 fastdnaml forky /srv/reproducible-results/rbuild-debian/r-b-build.Ud7x5N5x 1.2.2-18" as arguments. Fri Oct 31 19:57:58 UTC 2025 - actually running "reproducible_build.sh" (md5sum bcb6fe1b50cf4e8eedacd0971a9eb63f) as "/tmp/jenkins-script-uBPZ884o" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Fri Oct 31 19:57:58 UTC 2025 I: Downloading source for forky/fastdnaml=1.2.2-18 Reading package lists... NOTICE: 'fastdnaml' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/fastdnaml.git Please use: git clone https://salsa.debian.org/med-team/fastdnaml.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 82.0 kB of source archives. Get:1 http://deb.debian.org/debian forky/main fastdnaml 1.2.2-18 (dsc) [2192 B] Get:2 http://deb.debian.org/debian forky/main fastdnaml 1.2.2-18 (tar) [70.0 kB] Get:3 http://deb.debian.org/debian forky/main fastdnaml 1.2.2-18 (diff) [9808 B] Fetched 82.0 kB in 0s (4511 kB/s) Download complete and in download only mode Reading package lists... NOTICE: 'fastdnaml' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/fastdnaml.git Please use: git clone https://salsa.debian.org/med-team/fastdnaml.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 82.0 kB of source archives. Get:1 http://deb.debian.org/debian forky/main fastdnaml 1.2.2-18 (dsc) [2192 B] Get:2 http://deb.debian.org/debian forky/main fastdnaml 1.2.2-18 (tar) [70.0 kB] Get:3 http://deb.debian.org/debian forky/main fastdnaml 1.2.2-18 (diff) [9808 B] Fetched 82.0 kB in 0s (4511 kB/s) Download complete and in download only mode ============================================================================= Re-Building fastdnaml in forky on arm64 on codethink04-arm64 now. Date: Fri Oct 31 19:57:58 GMT 2025 Date UTC: Fri Oct 31 19:57:58 UTC 2025 ============================================================================= ++ mktemp -t pbuilderrc_XXXX --tmpdir=/srv/reproducible-results/rbuild-debian/r-b-build.Ud7x5N5x + local TMPCFG=/srv/reproducible-results/rbuild-debian/r-b-build.Ud7x5N5x/pbuilderrc_SjYp + case ${ARCH} in + case $ARCH in + locale=nl_BE + language=nl + case "${SUITE}" in + reproducible_buildflags=+all + extra_deb_build_options= + case "${SRCPACKAGE}" in + cat + echo BUILDDIR=/build/reproducible-path + '[' fastdnaml = debian-installer -o fastdnaml = debian-installer-netboot-images ']' + pbuilder_options=() + local pbuilder_options + DEBBUILDOPTS=-b + BINARYTARGET= + '[' fastdnaml = u-boot ']' + case "${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.Ud7x5N5x/pbuilderrc_SjYp --distribution forky --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.Ud7x5N5x/b2 --logfile b2/build.log fastdnaml_1.2.2-18.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 Nov 1 09:57:58 +14 2025 I: pbuilder-time-stamp: 1761940678 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-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 [fastdnaml_1.2.2-18.dsc] I: copying [./fastdnaml_1.2.2.orig.tar.gz] I: copying [./fastdnaml_1.2.2-18.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./fastdnaml_1.2.2-18.dsc: no acceptable signature found dpkg-source: info: extracting fastdnaml in fastdnaml-1.2.2 dpkg-source: info: unpacking fastdnaml_1.2.2.orig.tar.gz dpkg-source: info: unpacking fastdnaml_1.2.2-18.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying Makefile.patch dpkg-source: info: applying scripts.patch dpkg-source: info: applying hardening.patch dpkg-source: info: applying cross.patch dpkg-source: info: applying fixup-implicit-function-declaration.patch dpkg-source: info: applying gcc-14.patch dpkg-source: info: applying gcc-15.patch dpkg-source: info: applying fortify.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1946779/tmp/hooks/D01_modify_environment starting debug: Running on codethink04-arm64. 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 Oct 31 19:58 /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/1946779/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/1946779/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]="3" [2]="3" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") BASH_VERSION='5.3.3(1)-release' BUILDDIR=/build/reproducible-path BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=arm64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 nocheck' DIRSTACK=() DISTRIBUTION=forky EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=aarch64 HOST_ARCH=arm64 IFS=' ' INVOCATION_ID=1b78369c28ff4f92a52df90d1e6c7b59 LANG=C LANGUAGE=nl_BE:nl LC_ALL=C MACHTYPE=aarch64-unknown-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=1946779 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.Ud7x5N5x/pbuilderrc_SjYp --distribution forky --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.Ud7x5N5x/b2 --logfile b2/build.log fastdnaml_1.2.2-18.dsc' SUDO_GID=109 SUDO_HOME=/var/lib/jenkins SUDO_UID=104 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://192.168.101.4:3128 I: uname -a Linux i-capture-the-hostname 6.12.48+deb13-cloud-arm64 #1 SMP Debian 6.12.48-1 (2025-09-20) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/1946779/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: arm64 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) dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19971 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. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libtool{a} libuchardet0{a} libunistring5{a} libxml2-16{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 29 newly installed, 0 to remove and 0 not upgraded. Need to get 11.0 MB of archives. After unpacking 45.0 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian forky/main arm64 sensible-utils all 0.0.26 [27.0 kB] Get: 2 http://deb.debian.org/debian forky/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Get: 3 http://deb.debian.org/debian forky/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Get: 4 http://deb.debian.org/debian forky/main arm64 file arm64 1:5.46-5 [43.7 kB] Get: 5 http://deb.debian.org/debian forky/main arm64 gettext-base arm64 0.23.1-2+b1 [241 kB] Get: 6 http://deb.debian.org/debian forky/main arm64 libuchardet0 arm64 0.0.8-2 [69.0 kB] Get: 7 http://deb.debian.org/debian forky/main arm64 groff-base arm64 1.23.0-9 [1130 kB] Get: 8 http://deb.debian.org/debian forky/main arm64 bsdextrautils arm64 2.41.2-4 [97.3 kB] Get: 9 http://deb.debian.org/debian forky/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 10 http://deb.debian.org/debian forky/main arm64 man-db arm64 2.13.1-1 [1453 kB] Get: 11 http://deb.debian.org/debian forky/main arm64 m4 arm64 1.4.20-2 [315 kB] Get: 12 http://deb.debian.org/debian forky/main arm64 autoconf all 2.72-3.1 [494 kB] Get: 13 http://deb.debian.org/debian forky/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get: 14 http://deb.debian.org/debian forky/main arm64 automake all 1:1.18.1-2 [877 kB] Get: 15 http://deb.debian.org/debian forky/main arm64 autopoint all 0.23.1-2 [770 kB] Get: 16 http://deb.debian.org/debian forky/main arm64 libdebhelper-perl all 13.28 [92.4 kB] Get: 17 http://deb.debian.org/debian forky/main arm64 libtool all 2.5.4-7 [540 kB] Get: 18 http://deb.debian.org/debian forky/main arm64 dh-autoreconf all 21 [12.2 kB] Get: 19 http://deb.debian.org/debian forky/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian forky/main arm64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get: 21 http://deb.debian.org/debian forky/main arm64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get: 22 http://deb.debian.org/debian forky/main arm64 libelf1t64 arm64 0.193-3 [189 kB] Get: 23 http://deb.debian.org/debian forky/main arm64 dwz arm64 0.16-2 [100 kB] Get: 24 http://deb.debian.org/debian forky/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get: 25 http://deb.debian.org/debian forky/main arm64 libxml2-16 arm64 2.14.6+dfsg-0.1 [601 kB] Get: 26 http://deb.debian.org/debian forky/main arm64 gettext arm64 0.23.1-2+b1 [1612 kB] Get: 27 http://deb.debian.org/debian forky/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian forky/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian forky/main arm64 debhelper all 13.28 [941 kB] Fetched 11.0 MB in 0s (146 MB/s) Preconfiguring packages ... Selecting previously unselected package sensible-utils. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19971 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.26_all.deb ... Unpacking sensible-utils (0.0.26) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.46-5_arm64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../02-libmagic1t64_1%3a5.46-5_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.46-5) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.46-5_arm64.deb ... Unpacking file (1:5.46-5) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.23.1-2+b1_arm64.deb ... Unpacking gettext-base (0.23.1-2+b1) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../05-libuchardet0_0.0.8-2_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-2) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-9_arm64.deb ... Unpacking groff-base (1.23.0-9) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.41.2-4_arm64.deb ... Unpacking bsdextrautils (2.41.2-4) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../08-libpipeline1_1.5.8-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.13.1-1_arm64.deb ... Unpacking man-db (2.13.1-1) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.20-2_arm64.deb ... Unpacking m4 (1.4.20-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.72-3.1_all.deb ... Unpacking autoconf (2.72-3.1) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20240727.1_all.deb ... Unpacking autotools-dev (20240727.1) ... Selecting previously unselected package automake. Preparing to unpack .../13-automake_1%3a1.18.1-2_all.deb ... Unpacking automake (1:1.18.1-2) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_0.23.1-2_all.deb ... Unpacking autopoint (0.23.1-2) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.28_all.deb ... Unpacking libdebhelper-perl (13.28) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.5.4-7_all.deb ... Unpacking libtool (2.5.4-7) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../17-dh-autoreconf_21_all.deb ... Unpacking dh-autoreconf (21) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../18-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../19-libfile-stripnondeterminism-perl_1.15.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.15.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../20-dh-strip-nondeterminism_1.15.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.15.0-1) ... Selecting previously unselected package libelf1t64:arm64. Preparing to unpack .../21-libelf1t64_0.193-3_arm64.deb ... Unpacking libelf1t64:arm64 (0.193-3) ... Selecting previously unselected package dwz. Preparing to unpack .../22-dwz_0.16-2_arm64.deb ... Unpacking dwz (0.16-2) ... Selecting previously unselected package libunistring5:arm64. Preparing to unpack .../23-libunistring5_1.3-2_arm64.deb ... Unpacking libunistring5:arm64 (1.3-2) ... Selecting previously unselected package libxml2-16:arm64. Preparing to unpack .../24-libxml2-16_2.14.6+dfsg-0.1_arm64.deb ... Unpacking libxml2-16:arm64 (2.14.6+dfsg-0.1) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_0.23.1-2+b1_arm64.deb ... Unpacking gettext (0.23.1-2+b1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../26-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 .../27-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../28-debhelper_13.28_all.deb ... Unpacking debhelper (13.28) ... Setting up libpipeline1:arm64 (1.5.8-1) ... Setting up bsdextrautils (2.41.2-4) ... Setting up libmagic-mgc (1:5.46-5) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libxml2-16:arm64 (2.14.6+dfsg-0.1) ... Setting up libdebhelper-perl (13.28) ... Setting up libmagic1t64:arm64 (1:5.46-5) ... Setting up gettext-base (0.23.1-2+b1) ... Setting up m4 (1.4.20-2) ... Setting up file (1:5.46-5) ... Setting up libelf1t64:arm64 (0.193-3) ... Setting up autotools-dev (20240727.1) ... Setting up libunistring5:arm64 (1.3-2) ... Setting up autopoint (0.23.1-2) ... Setting up autoconf (2.72-3.1) ... Setting up dwz (0.16-2) ... Setting up sensible-utils (0.0.26) ... Setting up libuchardet0:arm64 (0.0.8-2) ... Setting up automake (1:1.18.1-2) ... update-alternatives: using /usr/bin/automake-1.18 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.15.0-1) ... Setting up gettext (0.23.1-2+b1) ... Setting up libtool (2.5.4-7) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (21) ... Setting up dh-strip-nondeterminism (1.15.0-1) ... Setting up groff-base (1.23.0-9) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.28) ... Processing triggers for libc-bin (2.41-12) ... 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/1946779/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for forky I: user script /srv/workspace/pbuilder/1946779/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/fastdnaml-1.2.2/ && 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 > ../fastdnaml_1.2.2-18_source.changes dpkg-buildpackage: info: source package fastdnaml dpkg-buildpackage: info: source version 1.2.2-18 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean dh_auto_clean make -j12 clean make[1]: Entering directory '/build/reproducible-path/fastdnaml-1.2.2' (cd source; rm -f *.o fastDNAml) rm -rf tests rm -f checkpoint.* make[1]: Leaving directory '/build/reproducible-path/fastdnaml-1.2.2' debian/rules override_dh_clean make[1]: Entering directory '/build/reproducible-path/fastdnaml-1.2.2' dh_clean rm -fr source/fastDNAml make[1]: Leaving directory '/build/reproducible-path/fastdnaml-1.2.2' debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure dh_auto_build make -j12 INSTALL="install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/fastdnaml-1.2.2' cd source && cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/fastdnaml-1.2.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard fastDNAml.c -o fastDNAml -lm -Wl,-z,relro -Wl,-z,now fastDNAml.c: In function 'processTreeCom': fastDNAml.c:3957:12: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 3957 | (void) fscanf(fp, " p%nhylip_tree(%n", & text_started, & functor_read); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fastDNAml.c:3959:14: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 3959 | (void) fscanf(fp, "seudoNewick(%n", & functor_read); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fastDNAml.c:3967:12: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 3967 | (void) fscanf(fp, " [%n", & com_open); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fastDNAml.c:3985:32: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 3985 | if (functor_read) (void) fscanf(fp, " ,"); /* remove trailing comma */ | ^~~~~~~~~~~~~~~~ make[1]: Leaving directory '/build/reproducible-path/fastdnaml-1.2.2' dh: command-omitted: The call to "dh_auto_test" was omitted due to "DEB_BUILD_OPTIONS=nocheck" create-stamp debian/debhelper-build-stamp dh_prep dh_installdirs debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/fastdnaml-1.2.2' # do nothing make[1]: Leaving directory '/build/reproducible-path/fastdnaml-1.2.2' debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/fastdnaml-1.2.2' dh_install cp -a docs/fastDNAml_doc_1.2.txt `pwd`/debian/`dh_listpackages`/usr/share/`dh_listpackages`/fastdnaml_help # the scripts have to be executable thus mentioning these in debian/install is not enough cp -a scripts/* `pwd`/debian/`dh_listpackages`/usr/lib/`dh_listpackages`/bin chmod 755 `pwd`/debian/`dh_listpackages`/usr/lib/`dh_listpackages`/bin/* make[1]: Leaving directory '/build/reproducible-path/fastdnaml-1.2.2' dh_installdocs dh_installchangelogs dh_installexamples dh_installman dh_installmenu dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'fastdnaml-dbgsym' in '../fastdnaml-dbgsym_1.2.2-18_arm64.deb'. dpkg-deb: building package 'fastdnaml' in '../fastdnaml_1.2.2-18_arm64.deb'. dpkg-genbuildinfo --build=binary -O../fastdnaml_1.2.2-18_arm64.buildinfo dpkg-genchanges --build=binary -O../fastdnaml_1.2.2-18_arm64.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/1946779/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/1946779/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/1946779 and its subdirectories I: Current time: Sat Nov 1 09:58:21 +14 2025 I: pbuilder-time-stamp: 1761940701 + false + set +x Fri Oct 31 19:58:21 UTC 2025 I: Signing ./b2/fastdnaml_1.2.2-18_arm64.buildinfo as fastdnaml_1.2.2-18_arm64.buildinfo.asc Fri Oct 31 19:58:21 UTC 2025 I: Signed ./b2/fastdnaml_1.2.2-18_arm64.buildinfo as ./b2/fastdnaml_1.2.2-18_arm64.buildinfo.asc Fri Oct 31 19:58:21 UTC 2025 - build #2 for fastdnaml/forky/arm64 on codethink04-arm64 done. Starting cleanup. All cleanup done. Fri Oct 31 19:58:21 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-uBPZ884o, removing. /srv/reproducible-results/rbuild-debian/r-b-build.Ud7x5N5x: total 36 drwxrwxr-x 2 jenkins jenkins 4096 Oct 31 19:57 b1 drwxrwxr-x 2 jenkins jenkins 4096 Oct 31 19:58 b2 -rw-rw-r-- 1 jenkins jenkins 2192 Mar 2 2025 fastdnaml_1.2.2-18.dsc -rw------- 1 jenkins jenkins 24053 Oct 31 19:57 rbuildlog.lcLBPRF /srv/reproducible-results/rbuild-debian/r-b-build.Ud7x5N5x/b1: total 204 -rw-r--r-- 1 jenkins jenkins 20437 Oct 31 19:57 build.log -rw-r--r-- 1 jenkins jenkins 77724 Oct 31 19:57 fastdnaml-dbgsym_1.2.2-18_arm64.deb -rw-r--r-- 1 jenkins jenkins 9808 Oct 31 19:57 fastdnaml_1.2.2-18.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2192 Oct 31 19:57 fastdnaml_1.2.2-18.dsc -rw-r--r-- 1 jenkins jenkins 4755 Oct 31 19:57 fastdnaml_1.2.2-18_arm64.buildinfo -rw-rw-r-- 1 jenkins jenkins 5637 Oct 31 19:57 fastdnaml_1.2.2-18_arm64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1761 Oct 31 19:57 fastdnaml_1.2.2-18_arm64.changes -rw-r--r-- 1 jenkins jenkins 57456 Oct 31 19:57 fastdnaml_1.2.2-18_arm64.deb -rw-r--r-- 1 jenkins jenkins 1608 Oct 31 19:57 fastdnaml_1.2.2-18_source.changes /srv/reproducible-results/rbuild-debian/r-b-build.Ud7x5N5x/b2: total 200 -rw-rw-r-- 1 jenkins jenkins 22461 Oct 31 19:58 build.log -rw-r--r-- 1 jenkins jenkins 77724 Oct 31 19:58 fastdnaml-dbgsym_1.2.2-18_arm64.deb -rw-r--r-- 1 jenkins jenkins 9808 Oct 31 19:58 fastdnaml_1.2.2-18.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2192 Oct 31 19:58 fastdnaml_1.2.2-18.dsc -rw-rw-r-- 1 jenkins jenkins 4763 Oct 31 19:58 fastdnaml_1.2.2-18_arm64.buildinfo -rw-rw-r-- 1 jenkins jenkins 5645 Oct 31 19:58 fastdnaml_1.2.2-18_arm64.buildinfo.asc -rw-rw-r-- 1 jenkins jenkins 1761 Oct 31 19:58 fastdnaml_1.2.2-18_arm64.changes -rw-r--r-- 1 jenkins jenkins 57456 Oct 31 19:58 fastdnaml_1.2.2-18_arm64.deb -rw-rw-r-- 1 jenkins jenkins 1608 Oct 31 19:58 fastdnaml_1.2.2-18_source.changes Fri Oct 31 19:58:22 UTC 2025 I: Deleting $TMPDIR on codethink04-arm64.debian.net. Fri Oct 31 19:58:22 UTC 2025 I: fastdnaml_1.2.2-18_arm64.changes: Format: 1.8 Date: Sun, 02 Mar 2025 10:38:27 +0100 Source: fastdnaml Binary: fastdnaml fastdnaml-dbgsym Architecture: arm64 Version: 1.2.2-18 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Étienne Mollier Description: fastdnaml - Tool for construction of phylogenetic trees of DNA sequences Closes: 1096609 Changes: fastdnaml (1.2.2-18) unstable; urgency=medium . * gcc-15.patch: new: fix build failure with gcc-15. (Closes: #1096609) * d/control: declare compliance to standards version 4.7.2. * hardening.patch: normalise Last-Update timestamp. * fixup-implicit-function-declaration.patch: dep3 header. * fortify.patch: new: fortify binaries hardening. * d/*: identified new upstream source location. * d/watch: update watch file to new upstream location. Checksums-Sha1: f037c1eee8c815f58f0bb615dd729bc8c53a569c 77724 fastdnaml-dbgsym_1.2.2-18_arm64.deb 999bb4832991fa0a05eccf3f53ba4c92f04be889 4755 fastdnaml_1.2.2-18_arm64.buildinfo bbe5eb499b93aa1345c09449cbf362565dc1332c 57456 fastdnaml_1.2.2-18_arm64.deb Checksums-Sha256: 7c264d8d5e83a8c1025eae47461d54fad1bb53371bb5ec24265e1d6e4e9c34fe 77724 fastdnaml-dbgsym_1.2.2-18_arm64.deb de1520082e1f70062e8f9a41b3c1a581061e7593349343e2c85a588311dfcfdd 4755 fastdnaml_1.2.2-18_arm64.buildinfo 6384d4ea18abdb1ff902f377609ed61f687c64cce7c436328f1bf7ff4effa269 57456 fastdnaml_1.2.2-18_arm64.deb Files: 380c6781472cbc0f83103f0e88e793a8 77724 debug optional fastdnaml-dbgsym_1.2.2-18_arm64.deb f93b7d5fe3219f6d46cc8d9e68ab470c 4755 science optional fastdnaml_1.2.2-18_arm64.buildinfo 456b8baf4c2d6cc77d8f2fb695991190 57456 science optional fastdnaml_1.2.2-18_arm64.deb removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/forky/arm64/fastdnaml_1.2.2-18.rbuild.log' removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/forky/arm64/fastdnaml_1.2.2-18.rbuild.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/forky/arm64/fastdnaml_1.2.2-18.build1.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/forky/arm64/fastdnaml_1.2.2-18.build2.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/buildinfo/forky/arm64/fastdnaml_1.2.2-18_arm64.buildinfo' removed '/var/lib/jenkins/userContent/reproducible/debian/logdiffs/forky/arm64/fastdnaml_1.2.2-18.diff.gz' Diff of the two buildlogs: -- --- b1/build.log 2025-10-31 19:57:56.749781137 +0000 +++ b2/build.log 2025-10-31 19:58:22.369813290 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Thu Dec 3 14:20:31 -12 2026 -I: pbuilder-time-stamp: 1796350831 +I: Current time: Sat Nov 1 09:57:58 +14 2025 +I: pbuilder-time-stamp: 1761940678 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-reproducible-base.tgz] I: copying local configuration @@ -31,53 +31,85 @@ dpkg-source: info: applying fortify.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/1874354/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/1946779/tmp/hooks/D01_modify_environment starting +debug: Running on codethink04-arm64. +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 Oct 31 19:58 /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/1946779/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/1946779/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='arm64' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' - DISTRIBUTION='forky' - HOME='/root' - HOST_ARCH='arm64' + 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]="3" [2]="3" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") + BASH_VERSION='5.3.3(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=arm64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 nocheck' + DIRSTACK=() + DISTRIBUTION=forky + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - INVOCATION_ID='a403199b6c704f42b9e2f583a42ca8a8' - 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='1874354' - PS1='# ' - PS2='> ' + INVOCATION_ID=1b78369c28ff4f92a52df90d1e6c7b59 + LANG=C + LANGUAGE=nl_BE:nl + LC_ALL=C + MACHTYPE=aarch64-unknown-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=1946779 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.Ud7x5N5x/pbuilderrc_4vg3 --distribution forky --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.Ud7x5N5x/b1 --logfile b1/build.log fastdnaml_1.2.2-18.dsc' - SUDO_GID='109' - SUDO_HOME='/var/lib/jenkins' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://192.168.101.4:3128' + 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.Ud7x5N5x/pbuilderrc_SjYp --distribution forky --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.Ud7x5N5x/b2 --logfile b2/build.log fastdnaml_1.2.2-18.dsc' + SUDO_GID=109 + SUDO_HOME=/var/lib/jenkins + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://192.168.101.4:3128 I: uname -a - Linux codethink03-arm64 6.12.48+deb13-cloud-arm64 #1 SMP Debian 6.12.48-1 (2025-09-20) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.12.48+deb13-cloud-arm64 #1 SMP Debian 6.12.48-1 (2025-09-20) aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/1874354/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/1946779/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: 27 http://deb.debian.org/debian forky/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian forky/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian forky/main arm64 debhelper all 13.28 [941 kB] -Fetched 11.0 MB in 0s (75.2 MB/s) +Fetched 11.0 MB in 0s (146 MB/s) Preconfiguring packages ... Selecting previously unselected package sensible-utils. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19971 files and directories currently installed.) @@ -273,7 +305,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/fastdnaml-1.2.2/ && 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 > ../fastdnaml_1.2.2-18_source.changes +I: user script /srv/workspace/pbuilder/1946779/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for forky +I: user script /srv/workspace/pbuilder/1946779/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/fastdnaml-1.2.2/ && 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 > ../fastdnaml_1.2.2-18_source.changes dpkg-buildpackage: info: source package fastdnaml dpkg-buildpackage: info: source version 1.2.2-18 dpkg-buildpackage: info: source distribution unstable @@ -317,7 +353,7 @@ 3985 | if (functor_read) (void) fscanf(fp, " ,"); /* remove trailing comma */ | ^~~~~~~~~~~~~~~~ make[1]: Leaving directory '/build/reproducible-path/fastdnaml-1.2.2' - dh_auto_test +dh: command-omitted: The call to "dh_auto_test" was omitted due to "DEB_BUILD_OPTIONS=nocheck" create-stamp debian/debhelper-build-stamp dh_prep dh_installdirs @@ -356,8 +392,8 @@ dh_gencontrol dh_md5sums dh_builddeb -dpkg-deb: building package 'fastdnaml' in '../fastdnaml_1.2.2-18_arm64.deb'. dpkg-deb: building package 'fastdnaml-dbgsym' in '../fastdnaml-dbgsym_1.2.2-18_arm64.deb'. +dpkg-deb: building package 'fastdnaml' in '../fastdnaml_1.2.2-18_arm64.deb'. dpkg-genbuildinfo --build=binary -O../fastdnaml_1.2.2-18_arm64.buildinfo dpkg-genchanges --build=binary -O../fastdnaml_1.2.2-18_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -365,12 +401,14 @@ 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/1946779/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/1946779/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/1874354 and its subdirectories -I: Current time: Thu Dec 3 14:20:55 -12 2026 -I: pbuilder-time-stamp: 1796350855 +I: removing directory /srv/workspace/pbuilder/1946779 and its subdirectories +I: Current time: Sat Nov 1 09:58:21 +14 2025 +I: pbuilder-time-stamp: 1761940701 Compressing the 2nd log... /var/lib/jenkins/userContent/reproducible/debian/logdiffs/forky/arm64/fastdnaml_1.2.2-18.diff: 67.0% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/logdiffs/forky/arm64/fastdnaml_1.2.2-18.diff.gz b2/build.log: 73.3% -- replaced with stdout Compressing the 1st log... b1/build.log: 74.3% -- replaced with stdout Fri Oct 31 19:58:23 UTC 2025 I: diffoscope 306 will be used to compare the two builds: ++ date -u +%s + DIFFOSCOPE_STAMP=/var/log/reproducible-builds/diffoscope_stamp_fastdnaml_forky_arm64_1761940703 + touch /var/log/reproducible-builds/diffoscope_stamp_fastdnaml_forky_arm64_1761940703 + RESULT=0 + systemd-run '--description=diffoscope on fastdnaml/1.2.2-18 in forky/arm64' --slice=rb-build-diffoscope.slice -u rb-diffoscope-arm64_1-104123 '--property=SuccessExitStatus=1 124' --user --send-sighup --pipe --wait -E TMPDIR timeout 155m nice schroot --directory /srv/reproducible-results/rbuild-debian/r-b-build.Ud7x5N5x --run-session -c jenkins-reproducible-forky-diffoscope-87266e33-54b4-4be8-9a35-39b1071009ad -- sh -c 'export TMPDIR=/srv/reproducible-results/rbuild-debian/r-b-build.Ud7x5N5x/dbd-tmp-MK2XbTP ; timeout 150m diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.Ud7x5N5x/fastdnaml_1.2.2-18.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.Ud7x5N5x/fastdnaml_1.2.2-18.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.Ud7x5N5x/fastdnaml_1.2.2-18.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.Ud7x5N5x/b1/fastdnaml_1.2.2-18_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.Ud7x5N5x/b2/fastdnaml_1.2.2-18_arm64.changes' + false + set +x Running as unit: rb-diffoscope-arm64_1-104123.service; invocation ID: c25817f2511b4632bc19d1c4d50ebd1b # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.Ud7x5N5x/fastdnaml_1.2.2-18.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.Ud7x5N5x/fastdnaml_1.2.2-18.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.Ud7x5N5x/fastdnaml_1.2.2-18.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.Ud7x5N5x/b1/fastdnaml_1.2.2-18_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.Ud7x5N5x/b2/fastdnaml_1.2.2-18_arm64.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/SUCCESS Service runtime: 214ms CPU time consumed: 170ms Memory peak: 17.9M (swap: 0B) __ _ _ _ / _| __ _ ___| |_ __| |_ __ __ _ _ __ ___ | | | |_ / _` / __| __/ _` | '_ \ / _` | '_ ` _ \| | | _| (_| \__ \ || (_| | | | | (_| | | | | | | | |_| \__,_|___/\__\__,_|_| |_|\__,_|_| |_| |_|_| Fri Oct 31 19:58:24 UTC 2025 I: diffoscope 306 found no differences in the changes files, and a .buildinfo file also exists. Fri Oct 31 19:58:24 UTC 2025 I: fastdnaml from forky built successfully and reproducibly on arm64. INSERT 0 1 INSERT 0 1 DELETE 1 [2025-10-31 19:58:24] INFO: Starting at 2025-10-31 19:58:24.609715 [2025-10-31 19:58:24] INFO: Generating the pages of 1 package(s) [2025-10-31 19:58:24] CRITICAL: https://tests.reproducible-builds.org/debian/forky/arm64/fastdnaml didn't produce a buildlog, even though it has been built. [2025-10-31 19:58:24] INFO: Finished at 2025-10-31 19:58:24.889864, took: 0:00:00.280152 Fri Oct 31 19:58:24 UTC 2025 - successfully updated the database and updated https://tests.reproducible-builds.org/debian/rb-pkg/forky/arm64/fastdnaml.html Fri Oct 31 19:58:24 UTC 2025 I: Removing signed fastdnaml_1.2.2-18_arm64.buildinfo.asc files: removed './b1/fastdnaml_1.2.2-18_arm64.buildinfo.asc' removed './b2/fastdnaml_1.2.2-18_arm64.buildinfo.asc' 1761940704 arm64 forky fastdnaml Starting cleanup. /var/lib/jenkins/userContent/reproducible/debian/rbuild/forky/arm64/fastdnaml_1.2.2-18.rbuild.log: 70.2% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/rbuild/forky/arm64/fastdnaml_1.2.2-18.rbuild.log.gz [2025-10-31 19:58:25] INFO: Starting at 2025-10-31 19:58:25.206566 [2025-10-31 19:58:25] INFO: Generating the pages of 1 package(s) [2025-10-31 19:58:25] INFO: Finished at 2025-10-31 19:58:25.482631, took: 0:00:00.276070 All cleanup done. Fri Oct 31 19:58:25 UTC 2025 - total duration: 0h 1m 13s. Fri Oct 31 19:58:25 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-FOqfYZIJ, removing. Finished with result: success Main processes terminated with: code=exited, status=0/SUCCESS Service runtime: 1min 14.240s CPU time consumed: 3.042s Memory peak: 41M (swap: 0B)