Running as unit: rb-build-arm64_21-18487.service ==================================================================================== Tue Jun 25 09:15:34 UTC 2024 - running /srv/jenkins/bin/reproducible_build.sh (for job reproducible_builder_arm64_21) on jenkins, called using "codethink03-arm64 codethink02-arm64" as arguments. Tue Jun 25 09:15:34 UTC 2024 - actually running "reproducible_build.sh" (md5sum 79f74068471242981be9b3b00196cbfb) as "/tmp/jenkins-script-WsQ5Tetz" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Tue Jun 25 09:15:35 UTC 2024 - checking /var/lib/jenkins/offline_nodes if codethink03-arm64.debian.net is marked as down. Tue Jun 25 09:15:35 UTC 2024 - checking via ssh if codethink03-arm64.debian.net is up. removed '/tmp/read-only-fs-test-e1zD5g' Tue Jun 25 09:15:35 UTC 2024 - checking /var/lib/jenkins/offline_nodes if codethink02-arm64.debian.net is marked as down. Tue Jun 25 09:15:35 UTC 2024 - checking via ssh if codethink02-arm64.debian.net is up. removed '/tmp/read-only-fs-test-HUmXqx' ok, let's check if phipack is building anywhere yet… ok, phipack is not building anywhere… UPDATE 1 ============================================================================= Initialising reproducibly build of phipack in unstable on arm64 on jenkins now. 1st build will be done on codethink03-arm64.debian.net. 2nd build will be done on codethink02-arm64.debian.net. ============================================================================= Tue Jun 25 09:15:46 UTC 2024 I: starting to build phipack/unstable/arm64 on jenkins on '2024-06-25 09:15' Tue Jun 25 09:15:46 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_21/18487/console.log 1719306946 arm64 unstable phipack Tue Jun 25 09:15:46 UTC 2024 I: Downloading source for unstable/phipack=0.0.20160614-5 --2024-06-25 09:15:46-- http://deb.debian.org/debian/pool/main/p/phipack/phipack_0.0.20160614-5.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2021 (2.0K) [text/prs.lines.tag] Saving to: ‘phipack_0.0.20160614-5.dsc’ 0K . 100% 279M=0s 2024-06-25 09:15:46 (279 MB/s) - ‘phipack_0.0.20160614-5.dsc’ saved [2021/2021] --2024-06-25 09:15:46-- http://deb.debian.org/debian/pool/main/p/phipack/phipack_0.0.20160614-5.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2021 (2.0K) [text/prs.lines.tag] Saving to: ‘phipack_0.0.20160614-5.dsc’ 0K . 100% 279M=0s 2024-06-25 09:15:46 (279 MB/s) - ‘phipack_0.0.20160614-5.dsc’ saved [2021/2021] Tue Jun 25 09:15:46 UTC 2024 I: phipack_0.0.20160614-5.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: phipack Binary: phipack Architecture: any Version: 0.0.20160614-5 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://www.maths.otago.ac.nz/~dbryant/software/phimanual.pdf Standards-Version: 4.5.0 Vcs-Browser: https://salsa.debian.org/med-team/phipack Vcs-Git: https://salsa.debian.org/med-team/phipack.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13) Package-List: phipack deb science optional arch=any Checksums-Sha1: 54f764223d3d92f91501a88ab643f6ce2b0d8ab1 54192 phipack_0.0.20160614.orig.tar.xz fd58cd8dfdbe3aa4d67cd2059176fabd24d56544 6792 phipack_0.0.20160614-5.debian.tar.xz Checksums-Sha256: 3942fa6b4c19b01d76a480321fe3d155bce2d0b02ac1f4c294f4418d22110952 54192 phipack_0.0.20160614.orig.tar.xz 6a4c719be1943400452c2be9b9aed7f1b3ce5d674b957a93ee5880484ba9de36 6792 phipack_0.0.20160614-5.debian.tar.xz Files: b58097108c19846ebd8473be57f6cf9c 54192 phipack_0.0.20160614.orig.tar.xz 342d20eac4d2dbbb730230abac692b90 6792 phipack_0.0.20160614-5.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAl9YdxARHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtGhDxAAkxKPhn3zHShjCnprjbHU7TZWtQnXGvYW xxlOnwNICitkVO+/ya/NGN78qKNMVFm9+WuPju+wKRSCHDYUTw5quQgzOcx+bkZ8 F6S1CrBx/c9zHdiDFngDGfONQ+6YC+NdnHCX66XnozIewyTOV8dVAttN5QXkXCJp rqXHf/7lLp7A15SJyktlVeByNpcDIpm2KplUMy6NCYOX54cC6ipm5+6UOld6vePK UfbKoMeH0Ka1h4alyi9FYx/bje735BhDI4lDXgErYb/N+aHxZWFfNXFxFj+rFf+a LNsBHLH49c2IwCP+M083qRWxV5DsGh5emASfjh0myqoev3MxNCNK97wcAC/axLm/ wnUzb2on91w90Fi5/UZENZCtMu4vs1vsR6uarDGgFBRGk+IM9ievZcB4OtknCdv1 S78Hb/o5J45C1p78kZoew1dqAcvWKz038IbPRiGnCReNp2WUP+bWf2nDUCtx/D/4 mirB88nR8A3GCGk4V4TFMopuXSvBScEDnore3HLbWMTXfdmYwfttpkO4orYzqf/f bdmDsysVkxRMFpTGVUzrNnJ46N18y50Fmkx4vPitbcZEbqbZGQvzwEuiK1FPh+iY ZtrHAl0vdvoUB79RuWG63CCD0jwVota/LvpPwGXPIoK2IYKK5en8fBrqFHVaRMI/ MdgqxKKEe/s= =38F6 -----END PGP SIGNATURE----- Tue Jun 25 09:15:46 UTC 2024 I: Checking whether the package is not for us Tue Jun 25 09:15:46 UTC 2024 I: Starting 1st build on remote node codethink03-arm64.debian.net. Tue Jun 25 09:15:46 UTC 2024 I: Preparing to do remote build '1' on codethink03-arm64.debian.net. Tue Jun 25 09:15:46 UTC 2024 - checking /var/lib/jenkins/offline_nodes if codethink03-arm64.debian.net is marked as down. Tue Jun 25 09:15:46 UTC 2024 - checking via ssh if codethink03-arm64.debian.net is up. removed '/tmp/read-only-fs-test-vAsg7r' ==================================================================================== Mon Jul 28 15:38:46 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on codethink03-arm64, called using "1 phipack unstable /srv/reproducible-results/rbuild-debian/r-b-build.Cum2YkVA 0.0.20160614-5" as arguments. Mon Jul 28 15:38:46 UTC 2025 - actually running "reproducible_build.sh" (md5sum 79f74068471242981be9b3b00196cbfb) as "/tmp/jenkins-script-11au5m9M" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Mon Jul 28 15:38:46 UTC 2025 I: Downloading source for unstable/phipack=0.0.20160614-5 Reading package lists... NOTICE: 'phipack' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/phipack.git Please use: git clone https://salsa.debian.org/med-team/phipack.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 63.0 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main phipack 0.0.20160614-5 (dsc) [2021 B] Get:2 http://deb.debian.org/debian unstable/main phipack 0.0.20160614-5 (tar) [54.2 kB] Get:3 http://deb.debian.org/debian unstable/main phipack 0.0.20160614-5 (diff) [6792 B] Fetched 63.0 kB in 0s (508 kB/s) Download complete and in download only mode Reading package lists... NOTICE: 'phipack' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/phipack.git Please use: git clone https://salsa.debian.org/med-team/phipack.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 63.0 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main phipack 0.0.20160614-5 (dsc) [2021 B] Get:2 http://deb.debian.org/debian unstable/main phipack 0.0.20160614-5 (tar) [54.2 kB] Get:3 http://deb.debian.org/debian unstable/main phipack 0.0.20160614-5 (diff) [6792 B] Fetched 63.0 kB in 0s (508 kB/s) Download complete and in download only mode ============================================================================= Building phipack in unstable on arm64 on codethink03-arm64 now. Date: Mon Jul 28 16:38:47 BST 2025 Date UTC: Mon Jul 28 15:38:47 UTC 2025 ============================================================================= W: /root/.pbuilderrc does not exist I: Logging to b1/build.log I: pbuilder: network access will be disabled during build I: Current time: Mon Jul 28 03:38:48 -12 2025 I: pbuilder-time-stamp: 1753717128 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [phipack_0.0.20160614-5.dsc] I: copying [./phipack_0.0.20160614.orig.tar.xz] I: copying [./phipack_0.0.20160614-5.debian.tar.xz] I: Extracting source gpgv: Signature made Wed Sep 9 06:32:48 2020 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./phipack_0.0.20160614-5.dsc: no acceptable signature found dpkg-source: info: extracting phipack in phipack-0.0.20160614 dpkg-source: info: unpacking phipack_0.0.20160614.orig.tar.xz dpkg-source: info: unpacking phipack_0.0.20160614-5.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying hardening.patch dpkg-source: info: applying cross.patch dpkg-source: info: applying phipack.unsigned.char.fixes.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3180969/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='unstable' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='cc8321323a1a486495200c8f6219933d' 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='3180969' 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.Cum2YkVA/pbuilderrc_Dj5W --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.Cum2YkVA/b1 --logfile b1/build.log phipack_0.0.20160614-5.dsc' SUDO_GID='109' 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 6.1.0-21-cloud-arm64 #1 SMP Debian 6.1.90-1 (2024-05-03) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Jun 5 2024 /bin -> usr/bin I: user script /srv/workspace/pbuilder/3180969/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 ... 19687 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} libicu72{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 29 newly installed, 0 to remove and 0 not upgraded. Need to get 19.2 MB of archives. After unpacking 77.4 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main arm64 sensible-utils all 0.0.24 [24.8 kB] Get: 2 http://deb.debian.org/debian unstable/main arm64 libmagic-mgc arm64 1:5.45-3 [314 kB] Get: 3 http://deb.debian.org/debian unstable/main arm64 libmagic1t64 arm64 1:5.45-3 [100 kB] Get: 4 http://deb.debian.org/debian unstable/main arm64 file arm64 1:5.45-3 [43.0 kB] Get: 5 http://deb.debian.org/debian unstable/main arm64 gettext-base arm64 0.22.5-1 [197 kB] Get: 6 http://deb.debian.org/debian unstable/main arm64 libuchardet0 arm64 0.0.8-1+b1 [69.0 kB] Get: 7 http://deb.debian.org/debian unstable/main arm64 groff-base arm64 1.23.0-4 [1130 kB] Get: 8 http://deb.debian.org/debian unstable/main arm64 bsdextrautils arm64 2.40.1-9 [95.2 kB] Get: 9 http://deb.debian.org/debian unstable/main arm64 libpipeline1 arm64 1.5.7-2 [36.5 kB] Get: 10 http://deb.debian.org/debian unstable/main arm64 man-db arm64 2.12.1-2 [1394 kB] Get: 11 http://deb.debian.org/debian unstable/main arm64 m4 arm64 1.4.19-4 [277 kB] Get: 12 http://deb.debian.org/debian unstable/main arm64 autoconf all 2.71-3 [332 kB] Get: 13 http://deb.debian.org/debian unstable/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian unstable/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 15 http://deb.debian.org/debian unstable/main arm64 autopoint all 0.22.5-1 [723 kB] Get: 16 http://deb.debian.org/debian unstable/main arm64 libdebhelper-perl all 13.16 [88.6 kB] Get: 17 http://deb.debian.org/debian unstable/main arm64 libtool all 2.4.7-7 [517 kB] Get: 18 http://deb.debian.org/debian unstable/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian unstable/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian unstable/main arm64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 21 http://deb.debian.org/debian unstable/main arm64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 22 http://deb.debian.org/debian unstable/main arm64 libelf1t64 arm64 0.191-1+b1 [187 kB] Get: 23 http://deb.debian.org/debian unstable/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 24 http://deb.debian.org/debian unstable/main arm64 libicu72 arm64 72.1-4+b1 [9224 kB] Get: 25 http://deb.debian.org/debian unstable/main arm64 libxml2 arm64 2.12.7+dfsg-3 [609 kB] Get: 26 http://deb.debian.org/debian unstable/main arm64 gettext arm64 0.22.5-1 [1526 kB] Get: 27 http://deb.debian.org/debian unstable/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian unstable/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian unstable/main arm64 debhelper all 13.16 [891 kB] Fetched 19.2 MB in 0s (71.8 MB/s) debconf: delaying package configuration, since apt-utils is not installed 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 ... 19687 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3_arm64.deb ... Unpacking libmagic-mgc (1:5.45-3) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.45-3) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3_arm64.deb ... Unpacking file (1:5.45-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.22.5-1_arm64.deb ... Unpacking gettext-base (0.22.5-1) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../05-libuchardet0_0.0.8-1+b1_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-4_arm64.deb ... Unpacking groff-base (1.23.0-4) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.40.1-9_arm64.deb ... Unpacking bsdextrautils (2.40.1-9) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../08-libpipeline1_1.5.7-2_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.7-2) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.12.1-2_arm64.deb ... Unpacking man-db (2.12.1-2) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-4_arm64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../13-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_0.22.5-1_all.deb ... Unpacking autopoint (0.22.5-1) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.16_all.deb ... Unpacking libdebhelper-perl (13.16) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.4.7-7_all.deb ... Unpacking libtool (2.4.7-7) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../17-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../18-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../19-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../20-dh-strip-nondeterminism_1.14.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.14.0-1) ... Selecting previously unselected package libelf1t64:arm64. Preparing to unpack .../21-libelf1t64_0.191-1+b1_arm64.deb ... Unpacking libelf1t64:arm64 (0.191-1+b1) ... Selecting previously unselected package dwz. Preparing to unpack .../22-dwz_0.15-1+b1_arm64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libicu72:arm64. Preparing to unpack .../23-libicu72_72.1-4+b1_arm64.deb ... Unpacking libicu72:arm64 (72.1-4+b1) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../24-libxml2_2.12.7+dfsg-3_arm64.deb ... Unpacking libxml2:arm64 (2.12.7+dfsg-3) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_0.22.5-1_arm64.deb ... Unpacking gettext (0.22.5-1) ... 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_13.16_all.deb ... Unpacking debhelper (13.16) ... Setting up libpipeline1:arm64 (1.5.7-2) ... Setting up libicu72:arm64 (72.1-4+b1) ... Setting up bsdextrautils (2.40.1-9) ... Setting up libmagic-mgc (1:5.45-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.16) ... Setting up libmagic1t64:arm64 (1:5.45-3) ... Setting up gettext-base (0.22.5-1) ... Setting up m4 (1.4.19-4) ... Setting up file (1:5.45-3) ... Setting up libelf1t64:arm64 (0.191-1+b1) ... Setting up autotools-dev (20220109.1) ... Setting up autopoint (0.22.5-1) ... Setting up autoconf (2.71-3) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libuchardet0:arm64 (0.0.8-1+b1) ... Setting up libxml2:arm64 (2.12.7+dfsg-3) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up gettext (0.22.5-1) ... Setting up libtool (2.4.7-7) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up groff-base (1.23.0-4) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.12.1-2) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.16) ... Processing triggers for libc-bin (2.38-13) ... 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/phipack-0.0.20160614/ && 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 > ../phipack_0.0.20160614-5_source.changes dpkg-buildpackage: info: source package phipack dpkg-buildpackage: info: source version 0.0.20160614-5 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean --sourcedirectory=src dh_auto_clean -O--sourcedirectory=src cd src && make -j12 clean make[1]: Entering directory '/build/reproducible-path/phipack-0.0.20160614/src' rm -f *.o rm -f Phi rm -f Profile make[1]: Leaving directory '/build/reproducible-path/phipack-0.0.20160614/src' dh_autoreconf_clean -O--sourcedirectory=src dh_clean -O--sourcedirectory=src debian/rules binary dh binary --sourcedirectory=src dh_update_autotools_config -O--sourcedirectory=src dh_autoreconf -O--sourcedirectory=src dh_auto_configure -O--sourcedirectory=src dh_auto_build -O--sourcedirectory=src cd src && make -j12 "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/phipack-0.0.20160614/src' gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall normal.c -o normal.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall stats.c -o stats.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall maxChi.c -o maxChi.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall main.c -o main.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall queue.c -o queue.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall graphCode.c -o graphCode.o stats.c: In function 'PHI': gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall fasta.c -o fasta.o stats.c:112:24: warning: variable 'states_j' set but not used [-Wunused-but-set-variable] 112 | int p_i,p_j,states_i,states_j; | ^~~~~~~~ stats.c:112:15: warning: variable 'states_i' set but not used [-Wunused-but-set-variable] 112 | int p_i,p_j,states_i,states_j; | ^~~~~~~~ gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall phylip.c -o phylip.o graphCode.c:2:2: warning: "/*" within comment [-Wcomment] 2 | /* This file is part of PhiPack. | gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall mem.c -o mem.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall misc.c -o misc.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall pairScore.c -o pairScore.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall seqManip.c -o seqManip.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall global.c -o global.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall profile.c -o profile.o gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall -o Profile normal.o stats.o fasta.o phylip.o mem.o misc.o pairScore.o seqManip.o global.o profile.o -lm -Wl,-z,relro -Wl,-z,now cp Profile ../ gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall -o Phi normal.o stats.o maxChi.o main.o queue.o graphCode.o fasta.o phylip.o mem.o misc.o pairScore.o seqManip.o global.o -lm -Wl,-z,relro -Wl,-z,now cp Phi ../ cd ppma_2_bmp && make make[2]: Entering directory '/build/reproducible-path/phipack-0.0.20160614/src/ppma_2_bmp' g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -o ppma_2_bmp ppma_io.C bmp_io.C ppma_2_bmp.C -lm -Wl,-z,relro -Wl,-z,now make[2]: Leaving directory '/build/reproducible-path/phipack-0.0.20160614/src/ppma_2_bmp' cp ppma_2_bmp/ppma_2_bmp ../ make[1]: Leaving directory '/build/reproducible-path/phipack-0.0.20160614/src' dh_auto_test -O--sourcedirectory=src create-stamp debian/debhelper-build-stamp dh_testroot -O--sourcedirectory=src dh_prep -O--sourcedirectory=src dh_auto_install --destdir=debian/phipack/ -O--sourcedirectory=src dh_install -O--sourcedirectory=src dh_installdocs -O--sourcedirectory=src dh_installchangelogs -O--sourcedirectory=src dh_installexamples -O--sourcedirectory=src dh_installman -O--sourcedirectory=src dh_installsystemduser -O--sourcedirectory=src dh_perl -O--sourcedirectory=src dh_link -O--sourcedirectory=src dh_strip_nondeterminism -O--sourcedirectory=src dh_compress -O--sourcedirectory=src dh_fixperms -O--sourcedirectory=src dh_missing -O--sourcedirectory=src dh_dwz -a -O--sourcedirectory=src dwz: debian/phipack/usr/lib/debian-med/bin/ppma_2_bmp: DWARF compression not beneficial - old size 158839 new size 160301 dh_strip -a -O--sourcedirectory=src dh_makeshlibs -a -O--sourcedirectory=src dh_shlibdeps -a -O--sourcedirectory=src 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 -O--sourcedirectory=src dh_gencontrol -O--sourcedirectory=src dh_md5sums -O--sourcedirectory=src dh_builddeb -O--sourcedirectory=src dpkg-deb: building package 'phipack-dbgsym' in '../phipack-dbgsym_0.0.20160614-5_arm64.deb'. dpkg-deb: building package 'phipack' in '../phipack_0.0.20160614-5_arm64.deb'. dpkg-genbuildinfo --build=binary -O../phipack_0.0.20160614-5_arm64.buildinfo dpkg-genchanges --build=binary -O../phipack_0.0.20160614-5_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/3180969 and its subdirectories I: Current time: Mon Jul 28 03:39:29 -12 2025 I: pbuilder-time-stamp: 1753717169 Mon Jul 28 15:39:29 UTC 2025 I: Signing ./b1/phipack_0.0.20160614-5_arm64.buildinfo as phipack_0.0.20160614-5_arm64.buildinfo.asc Mon Jul 28 15:39:30 UTC 2025 I: Signed ./b1/phipack_0.0.20160614-5_arm64.buildinfo as ./b1/phipack_0.0.20160614-5_arm64.buildinfo.asc Mon Jul 28 15:39:30 UTC 2025 - build #1 for phipack/unstable/arm64 on codethink03-arm64 done. Starting cleanup. All cleanup done. Mon Jul 28 15:39:30 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-11au5m9M, removing. /srv/reproducible-results/rbuild-debian/r-b-build.Cum2YkVA: total 16 drwxr-xr-x 2 jenkins jenkins 4096 Jun 25 09:16 b1 drwxr-xr-x 2 jenkins jenkins 4096 Jun 25 09:15 b2 -rw-r--r-- 1 jenkins jenkins 2021 Sep 9 2020 phipack_0.0.20160614-5.dsc -rw------- 1 jenkins jenkins 3166 Jun 25 09:15 rbuildlog.mlrre3o /srv/reproducible-results/rbuild-debian/r-b-build.Cum2YkVA/b1: total 300 -rw-r--r-- 1 jenkins jenkins 24666 Jun 25 09:16 build.log -rw-r--r-- 1 jenkins jenkins 188404 Jun 25 09:16 phipack-dbgsym_0.0.20160614-5_arm64.deb -rw-r--r-- 1 jenkins jenkins 6792 Jun 25 09:16 phipack_0.0.20160614-5.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2021 Jun 25 09:16 phipack_0.0.20160614-5.dsc -rw-r--r-- 1 jenkins jenkins 4969 Jun 25 09:16 phipack_0.0.20160614-5_arm64.buildinfo -rw-r--r-- 1 jenkins jenkins 5851 Jun 25 09:16 phipack_0.0.20160614-5_arm64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1589 Jun 25 09:16 phipack_0.0.20160614-5_arm64.changes -rw-r--r-- 1 jenkins jenkins 49492 Jun 25 09:16 phipack_0.0.20160614-5_arm64.deb -rw-r--r-- 1 jenkins jenkins 1456 Jun 25 09:16 phipack_0.0.20160614-5_source.changes /srv/reproducible-results/rbuild-debian/r-b-build.Cum2YkVA/b2: total 0 Tue Jun 25 09:16:33 UTC 2024 I: Deleting $TMPDIR on codethink03-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Mon Jul 28 03:38:48 -12 2025 I: pbuilder-time-stamp: 1753717128 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [phipack_0.0.20160614-5.dsc] I: copying [./phipack_0.0.20160614.orig.tar.xz] I: copying [./phipack_0.0.20160614-5.debian.tar.xz] I: Extracting source gpgv: Signature made Wed Sep 9 06:32:48 2020 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./phipack_0.0.20160614-5.dsc: no acceptable signature found dpkg-source: info: extracting phipack in phipack-0.0.20160614 dpkg-source: info: unpacking phipack_0.0.20160614.orig.tar.xz dpkg-source: info: unpacking phipack_0.0.20160614-5.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying hardening.patch dpkg-source: info: applying cross.patch dpkg-source: info: applying phipack.unsigned.char.fixes.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3180969/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='unstable' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='cc8321323a1a486495200c8f6219933d' 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='3180969' 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.Cum2YkVA/pbuilderrc_Dj5W --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.Cum2YkVA/b1 --logfile b1/build.log phipack_0.0.20160614-5.dsc' SUDO_GID='109' 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 6.1.0-21-cloud-arm64 #1 SMP Debian 6.1.90-1 (2024-05-03) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Jun 5 2024 /bin -> usr/bin I: user script /srv/workspace/pbuilder/3180969/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 ... 19687 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} libicu72{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 29 newly installed, 0 to remove and 0 not upgraded. Need to get 19.2 MB of archives. After unpacking 77.4 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main arm64 sensible-utils all 0.0.24 [24.8 kB] Get: 2 http://deb.debian.org/debian unstable/main arm64 libmagic-mgc arm64 1:5.45-3 [314 kB] Get: 3 http://deb.debian.org/debian unstable/main arm64 libmagic1t64 arm64 1:5.45-3 [100 kB] Get: 4 http://deb.debian.org/debian unstable/main arm64 file arm64 1:5.45-3 [43.0 kB] Get: 5 http://deb.debian.org/debian unstable/main arm64 gettext-base arm64 0.22.5-1 [197 kB] Get: 6 http://deb.debian.org/debian unstable/main arm64 libuchardet0 arm64 0.0.8-1+b1 [69.0 kB] Get: 7 http://deb.debian.org/debian unstable/main arm64 groff-base arm64 1.23.0-4 [1130 kB] Get: 8 http://deb.debian.org/debian unstable/main arm64 bsdextrautils arm64 2.40.1-9 [95.2 kB] Get: 9 http://deb.debian.org/debian unstable/main arm64 libpipeline1 arm64 1.5.7-2 [36.5 kB] Get: 10 http://deb.debian.org/debian unstable/main arm64 man-db arm64 2.12.1-2 [1394 kB] Get: 11 http://deb.debian.org/debian unstable/main arm64 m4 arm64 1.4.19-4 [277 kB] Get: 12 http://deb.debian.org/debian unstable/main arm64 autoconf all 2.71-3 [332 kB] Get: 13 http://deb.debian.org/debian unstable/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian unstable/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 15 http://deb.debian.org/debian unstable/main arm64 autopoint all 0.22.5-1 [723 kB] Get: 16 http://deb.debian.org/debian unstable/main arm64 libdebhelper-perl all 13.16 [88.6 kB] Get: 17 http://deb.debian.org/debian unstable/main arm64 libtool all 2.4.7-7 [517 kB] Get: 18 http://deb.debian.org/debian unstable/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian unstable/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian unstable/main arm64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 21 http://deb.debian.org/debian unstable/main arm64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 22 http://deb.debian.org/debian unstable/main arm64 libelf1t64 arm64 0.191-1+b1 [187 kB] Get: 23 http://deb.debian.org/debian unstable/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 24 http://deb.debian.org/debian unstable/main arm64 libicu72 arm64 72.1-4+b1 [9224 kB] Get: 25 http://deb.debian.org/debian unstable/main arm64 libxml2 arm64 2.12.7+dfsg-3 [609 kB] Get: 26 http://deb.debian.org/debian unstable/main arm64 gettext arm64 0.22.5-1 [1526 kB] Get: 27 http://deb.debian.org/debian unstable/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian unstable/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian unstable/main arm64 debhelper all 13.16 [891 kB] Fetched 19.2 MB in 0s (71.8 MB/s) debconf: delaying package configuration, since apt-utils is not installed 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 ... 19687 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3_arm64.deb ... Unpacking libmagic-mgc (1:5.45-3) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.45-3) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3_arm64.deb ... Unpacking file (1:5.45-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.22.5-1_arm64.deb ... Unpacking gettext-base (0.22.5-1) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../05-libuchardet0_0.0.8-1+b1_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-4_arm64.deb ... Unpacking groff-base (1.23.0-4) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.40.1-9_arm64.deb ... Unpacking bsdextrautils (2.40.1-9) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../08-libpipeline1_1.5.7-2_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.7-2) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.12.1-2_arm64.deb ... Unpacking man-db (2.12.1-2) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-4_arm64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../13-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_0.22.5-1_all.deb ... Unpacking autopoint (0.22.5-1) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.16_all.deb ... Unpacking libdebhelper-perl (13.16) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.4.7-7_all.deb ... Unpacking libtool (2.4.7-7) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../17-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../18-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../19-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../20-dh-strip-nondeterminism_1.14.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.14.0-1) ... Selecting previously unselected package libelf1t64:arm64. Preparing to unpack .../21-libelf1t64_0.191-1+b1_arm64.deb ... Unpacking libelf1t64:arm64 (0.191-1+b1) ... Selecting previously unselected package dwz. Preparing to unpack .../22-dwz_0.15-1+b1_arm64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libicu72:arm64. Preparing to unpack .../23-libicu72_72.1-4+b1_arm64.deb ... Unpacking libicu72:arm64 (72.1-4+b1) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../24-libxml2_2.12.7+dfsg-3_arm64.deb ... Unpacking libxml2:arm64 (2.12.7+dfsg-3) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_0.22.5-1_arm64.deb ... Unpacking gettext (0.22.5-1) ... 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_13.16_all.deb ... Unpacking debhelper (13.16) ... Setting up libpipeline1:arm64 (1.5.7-2) ... Setting up libicu72:arm64 (72.1-4+b1) ... Setting up bsdextrautils (2.40.1-9) ... Setting up libmagic-mgc (1:5.45-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.16) ... Setting up libmagic1t64:arm64 (1:5.45-3) ... Setting up gettext-base (0.22.5-1) ... Setting up m4 (1.4.19-4) ... Setting up file (1:5.45-3) ... Setting up libelf1t64:arm64 (0.191-1+b1) ... Setting up autotools-dev (20220109.1) ... Setting up autopoint (0.22.5-1) ... Setting up autoconf (2.71-3) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libuchardet0:arm64 (0.0.8-1+b1) ... Setting up libxml2:arm64 (2.12.7+dfsg-3) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up gettext (0.22.5-1) ... Setting up libtool (2.4.7-7) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up groff-base (1.23.0-4) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.12.1-2) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.16) ... Processing triggers for libc-bin (2.38-13) ... 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/phipack-0.0.20160614/ && 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 > ../phipack_0.0.20160614-5_source.changes dpkg-buildpackage: info: source package phipack dpkg-buildpackage: info: source version 0.0.20160614-5 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean --sourcedirectory=src dh_auto_clean -O--sourcedirectory=src cd src && make -j12 clean make[1]: Entering directory '/build/reproducible-path/phipack-0.0.20160614/src' rm -f *.o rm -f Phi rm -f Profile make[1]: Leaving directory '/build/reproducible-path/phipack-0.0.20160614/src' dh_autoreconf_clean -O--sourcedirectory=src dh_clean -O--sourcedirectory=src debian/rules binary dh binary --sourcedirectory=src dh_update_autotools_config -O--sourcedirectory=src dh_autoreconf -O--sourcedirectory=src dh_auto_configure -O--sourcedirectory=src dh_auto_build -O--sourcedirectory=src cd src && make -j12 "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/phipack-0.0.20160614/src' gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall normal.c -o normal.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall stats.c -o stats.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall maxChi.c -o maxChi.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall main.c -o main.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall queue.c -o queue.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall graphCode.c -o graphCode.o stats.c: In function 'PHI': gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall fasta.c -o fasta.o stats.c:112:24: warning: variable 'states_j' set but not used [-Wunused-but-set-variable] 112 | int p_i,p_j,states_i,states_j; | ^~~~~~~~ stats.c:112:15: warning: variable 'states_i' set but not used [-Wunused-but-set-variable] 112 | int p_i,p_j,states_i,states_j; | ^~~~~~~~ gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall phylip.c -o phylip.o graphCode.c:2:2: warning: "/*" within comment [-Wcomment] 2 | /* This file is part of PhiPack. | gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall mem.c -o mem.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall misc.c -o misc.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall pairScore.c -o pairScore.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall seqManip.c -o seqManip.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall global.c -o global.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall profile.c -o profile.o gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall -o Profile normal.o stats.o fasta.o phylip.o mem.o misc.o pairScore.o seqManip.o global.o profile.o -lm -Wl,-z,relro -Wl,-z,now cp Profile ../ gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall -o Phi normal.o stats.o maxChi.o main.o queue.o graphCode.o fasta.o phylip.o mem.o misc.o pairScore.o seqManip.o global.o -lm -Wl,-z,relro -Wl,-z,now cp Phi ../ cd ppma_2_bmp && make make[2]: Entering directory '/build/reproducible-path/phipack-0.0.20160614/src/ppma_2_bmp' g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -o ppma_2_bmp ppma_io.C bmp_io.C ppma_2_bmp.C -lm -Wl,-z,relro -Wl,-z,now make[2]: Leaving directory '/build/reproducible-path/phipack-0.0.20160614/src/ppma_2_bmp' cp ppma_2_bmp/ppma_2_bmp ../ make[1]: Leaving directory '/build/reproducible-path/phipack-0.0.20160614/src' dh_auto_test -O--sourcedirectory=src create-stamp debian/debhelper-build-stamp dh_testroot -O--sourcedirectory=src dh_prep -O--sourcedirectory=src dh_auto_install --destdir=debian/phipack/ -O--sourcedirectory=src dh_install -O--sourcedirectory=src dh_installdocs -O--sourcedirectory=src dh_installchangelogs -O--sourcedirectory=src dh_installexamples -O--sourcedirectory=src dh_installman -O--sourcedirectory=src dh_installsystemduser -O--sourcedirectory=src dh_perl -O--sourcedirectory=src dh_link -O--sourcedirectory=src dh_strip_nondeterminism -O--sourcedirectory=src dh_compress -O--sourcedirectory=src dh_fixperms -O--sourcedirectory=src dh_missing -O--sourcedirectory=src dh_dwz -a -O--sourcedirectory=src dwz: debian/phipack/usr/lib/debian-med/bin/ppma_2_bmp: DWARF compression not beneficial - old size 158839 new size 160301 dh_strip -a -O--sourcedirectory=src dh_makeshlibs -a -O--sourcedirectory=src dh_shlibdeps -a -O--sourcedirectory=src 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 -O--sourcedirectory=src dh_gencontrol -O--sourcedirectory=src dh_md5sums -O--sourcedirectory=src dh_builddeb -O--sourcedirectory=src dpkg-deb: building package 'phipack-dbgsym' in '../phipack-dbgsym_0.0.20160614-5_arm64.deb'. dpkg-deb: building package 'phipack' in '../phipack_0.0.20160614-5_arm64.deb'. dpkg-genbuildinfo --build=binary -O../phipack_0.0.20160614-5_arm64.buildinfo dpkg-genchanges --build=binary -O../phipack_0.0.20160614-5_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/3180969 and its subdirectories I: Current time: Mon Jul 28 03:39:29 -12 2025 I: pbuilder-time-stamp: 1753717169 Tue Jun 25 09:16:34 UTC 2024 I: 1st build successful. Starting 2nd build on remote node codethink02-arm64.debian.net. Tue Jun 25 09:16:34 UTC 2024 I: Preparing to do remote build '2' on codethink02-arm64.debian.net. Tue Jun 25 09:16:34 UTC 2024 - checking /var/lib/jenkins/offline_nodes if codethink02-arm64.debian.net is marked as down. Tue Jun 25 09:16:34 UTC 2024 - checking via ssh if codethink02-arm64.debian.net is up. removed '/tmp/read-only-fs-test-Rm2VPu' ==================================================================================== Tue Jun 25 09:16:35 UTC 2024 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on codethink02-arm64, called using "2 phipack unstable /srv/reproducible-results/rbuild-debian/r-b-build.Cum2YkVA 0.0.20160614-5" as arguments. Tue Jun 25 09:16:35 UTC 2024 - actually running "reproducible_build.sh" (md5sum 79f74068471242981be9b3b00196cbfb) as "/tmp/jenkins-script-ZOTd0tV1" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Tue Jun 25 09:16:35 UTC 2024 I: Downloading source for unstable/phipack=0.0.20160614-5 Reading package lists... NOTICE: 'phipack' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/phipack.git Please use: git clone https://salsa.debian.org/med-team/phipack.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 63.0 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main phipack 0.0.20160614-5 (dsc) [2021 B] Get:2 http://deb.debian.org/debian unstable/main phipack 0.0.20160614-5 (tar) [54.2 kB] Get:3 http://deb.debian.org/debian unstable/main phipack 0.0.20160614-5 (diff) [6792 B] Fetched 63.0 kB in 0s (3691 kB/s) Download complete and in download only mode Reading package lists... NOTICE: 'phipack' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/phipack.git Please use: git clone https://salsa.debian.org/med-team/phipack.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 63.0 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main phipack 0.0.20160614-5 (dsc) [2021 B] Get:2 http://deb.debian.org/debian unstable/main phipack 0.0.20160614-5 (tar) [54.2 kB] Get:3 http://deb.debian.org/debian unstable/main phipack 0.0.20160614-5 (diff) [6792 B] Fetched 63.0 kB in 0s (3691 kB/s) Download complete and in download only mode ============================================================================= Re-Building phipack in unstable on arm64 on codethink02-arm64 now. Date: Tue Jun 25 10:16:36 BST 2024 Date UTC: Tue Jun 25 09:16:36 UTC 2024 ============================================================================= ++ mktemp -t pbuilderrc_XXXX --tmpdir=/srv/reproducible-results/rbuild-debian/r-b-build.Cum2YkVA + local TMPCFG=/srv/reproducible-results/rbuild-debian/r-b-build.Cum2YkVA/pbuilderrc_ymWJ + case ${ARCH} in + case $ARCH in + locale=nl_BE + language=nl + case "${SUITE}" in + reproducible_buildflags=+all + extra_deb_build_options= + case "${SRCPACKAGE}" in + cat + echo BUILDDIR=/build/reproducible-path + '[' phipack = debian-installer -o phipack = debian-installer-netboot-images ']' + pbuilder_options=() + local pbuilder_options + DEBBUILDOPTS=-b + BINARYTARGET= + '[' phipack = u-boot ']' + case "${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.Cum2YkVA/pbuilderrc_ymWJ --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.Cum2YkVA/b2 --logfile b2/build.log phipack_0.0.20160614-5.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: Tue Jun 25 23:16:36 +14 2024 I: pbuilder-time-stamp: 1719306996 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [phipack_0.0.20160614-5.dsc] I: copying [./phipack_0.0.20160614.orig.tar.xz] I: copying [./phipack_0.0.20160614-5.debian.tar.xz] I: Extracting source gpgv: Signature made Wed Sep 9 06:32:48 2020 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./phipack_0.0.20160614-5.dsc: no acceptable signature found dpkg-source: info: extracting phipack in phipack-0.0.20160614 dpkg-source: info: unpacking phipack_0.0.20160614.orig.tar.xz dpkg-source: info: unpacking phipack_0.0.20160614-5.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying hardening.patch dpkg-source: info: applying cross.patch dpkg-source: info: applying phipack.unsigned.char.fixes.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3748957/tmp/hooks/D01_modify_environment starting debug: Running on codethink02-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 Jun 25 09:16 /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/3748957/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/3748957/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="2" [2]="21" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") BASH_VERSION='5.2.21(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 ' DIRSTACK=() DISTRIBUTION=unstable EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=aarch64 HOST_ARCH=arm64 IFS=' ' INVOCATION_ID=adc56dff8484402e936ffc8e56f48a52 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=3748957 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.Cum2YkVA/pbuilderrc_ymWJ --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.Cum2YkVA/b2 --logfile b2/build.log phipack_0.0.20160614-5.dsc' SUDO_GID=109 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 6.1.0-21-cloud-arm64 #1 SMP Debian 6.1.90-1 (2024-05-03) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Jun 5 22:35 /bin -> usr/bin I: user script /srv/workspace/pbuilder/3748957/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 ... 19687 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} libicu72{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 29 newly installed, 0 to remove and 0 not upgraded. Need to get 19.2 MB of archives. After unpacking 77.4 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main arm64 sensible-utils all 0.0.24 [24.8 kB] Get: 2 http://deb.debian.org/debian unstable/main arm64 libmagic-mgc arm64 1:5.45-3 [314 kB] Get: 3 http://deb.debian.org/debian unstable/main arm64 libmagic1t64 arm64 1:5.45-3 [100 kB] Get: 4 http://deb.debian.org/debian unstable/main arm64 file arm64 1:5.45-3 [43.0 kB] Get: 5 http://deb.debian.org/debian unstable/main arm64 gettext-base arm64 0.22.5-1 [197 kB] Get: 6 http://deb.debian.org/debian unstable/main arm64 libuchardet0 arm64 0.0.8-1+b1 [69.0 kB] Get: 7 http://deb.debian.org/debian unstable/main arm64 groff-base arm64 1.23.0-4 [1130 kB] Get: 8 http://deb.debian.org/debian unstable/main arm64 bsdextrautils arm64 2.40.1-9 [95.2 kB] Get: 9 http://deb.debian.org/debian unstable/main arm64 libpipeline1 arm64 1.5.7-2 [36.5 kB] Get: 10 http://deb.debian.org/debian unstable/main arm64 man-db arm64 2.12.1-2 [1394 kB] Get: 11 http://deb.debian.org/debian unstable/main arm64 m4 arm64 1.4.19-4 [277 kB] Get: 12 http://deb.debian.org/debian unstable/main arm64 autoconf all 2.71-3 [332 kB] Get: 13 http://deb.debian.org/debian unstable/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian unstable/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 15 http://deb.debian.org/debian unstable/main arm64 autopoint all 0.22.5-1 [723 kB] Get: 16 http://deb.debian.org/debian unstable/main arm64 libdebhelper-perl all 13.16 [88.6 kB] Get: 17 http://deb.debian.org/debian unstable/main arm64 libtool all 2.4.7-7 [517 kB] Get: 18 http://deb.debian.org/debian unstable/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian unstable/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian unstable/main arm64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 21 http://deb.debian.org/debian unstable/main arm64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 22 http://deb.debian.org/debian unstable/main arm64 libelf1t64 arm64 0.191-1+b1 [187 kB] Get: 23 http://deb.debian.org/debian unstable/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 24 http://deb.debian.org/debian unstable/main arm64 libicu72 arm64 72.1-4+b1 [9224 kB] Get: 25 http://deb.debian.org/debian unstable/main arm64 libxml2 arm64 2.12.7+dfsg-3 [609 kB] Get: 26 http://deb.debian.org/debian unstable/main arm64 gettext arm64 0.22.5-1 [1526 kB] Get: 27 http://deb.debian.org/debian unstable/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian unstable/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian unstable/main arm64 debhelper all 13.16 [891 kB] Fetched 19.2 MB in 0s (84.8 MB/s) debconf: delaying package configuration, since apt-utils is not installed 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 ... 19687 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3_arm64.deb ... Unpacking libmagic-mgc (1:5.45-3) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.45-3) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3_arm64.deb ... Unpacking file (1:5.45-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.22.5-1_arm64.deb ... Unpacking gettext-base (0.22.5-1) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../05-libuchardet0_0.0.8-1+b1_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-4_arm64.deb ... Unpacking groff-base (1.23.0-4) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.40.1-9_arm64.deb ... Unpacking bsdextrautils (2.40.1-9) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../08-libpipeline1_1.5.7-2_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.7-2) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.12.1-2_arm64.deb ... Unpacking man-db (2.12.1-2) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-4_arm64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../13-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_0.22.5-1_all.deb ... Unpacking autopoint (0.22.5-1) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.16_all.deb ... Unpacking libdebhelper-perl (13.16) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.4.7-7_all.deb ... Unpacking libtool (2.4.7-7) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../17-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../18-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../19-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../20-dh-strip-nondeterminism_1.14.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.14.0-1) ... Selecting previously unselected package libelf1t64:arm64. Preparing to unpack .../21-libelf1t64_0.191-1+b1_arm64.deb ... Unpacking libelf1t64:arm64 (0.191-1+b1) ... Selecting previously unselected package dwz. Preparing to unpack .../22-dwz_0.15-1+b1_arm64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libicu72:arm64. Preparing to unpack .../23-libicu72_72.1-4+b1_arm64.deb ... Unpacking libicu72:arm64 (72.1-4+b1) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../24-libxml2_2.12.7+dfsg-3_arm64.deb ... Unpacking libxml2:arm64 (2.12.7+dfsg-3) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_0.22.5-1_arm64.deb ... Unpacking gettext (0.22.5-1) ... 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_13.16_all.deb ... Unpacking debhelper (13.16) ... Setting up libpipeline1:arm64 (1.5.7-2) ... Setting up libicu72:arm64 (72.1-4+b1) ... Setting up bsdextrautils (2.40.1-9) ... Setting up libmagic-mgc (1:5.45-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.16) ... Setting up libmagic1t64:arm64 (1:5.45-3) ... Setting up gettext-base (0.22.5-1) ... Setting up m4 (1.4.19-4) ... Setting up file (1:5.45-3) ... Setting up libelf1t64:arm64 (0.191-1+b1) ... Setting up autotools-dev (20220109.1) ... Setting up autopoint (0.22.5-1) ... Setting up autoconf (2.71-3) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libuchardet0:arm64 (0.0.8-1+b1) ... Setting up libxml2:arm64 (2.12.7+dfsg-3) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up gettext (0.22.5-1) ... Setting up libtool (2.4.7-7) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up groff-base (1.23.0-4) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.12.1-2) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.16) ... Processing triggers for libc-bin (2.38-13) ... 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/3748957/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for unstable I: user script /srv/workspace/pbuilder/3748957/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/phipack-0.0.20160614/ && 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 > ../phipack_0.0.20160614-5_source.changes dpkg-buildpackage: info: source package phipack dpkg-buildpackage: info: source version 0.0.20160614-5 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean --sourcedirectory=src dh_auto_clean -O--sourcedirectory=src cd src && make -j12 clean make[1]: Entering directory '/build/reproducible-path/phipack-0.0.20160614/src' rm -f *.o rm -f Phi rm -f Profile make[1]: Leaving directory '/build/reproducible-path/phipack-0.0.20160614/src' dh_autoreconf_clean -O--sourcedirectory=src dh_clean -O--sourcedirectory=src debian/rules binary dh binary --sourcedirectory=src dh_update_autotools_config -O--sourcedirectory=src dh_autoreconf -O--sourcedirectory=src dh_auto_configure -O--sourcedirectory=src dh_auto_build -O--sourcedirectory=src cd src && make -j12 "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/phipack-0.0.20160614/src' gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall normal.c -o normal.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall stats.c -o stats.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall maxChi.c -o maxChi.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall main.c -o main.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall queue.c -o queue.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall graphCode.c -o graphCode.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall fasta.c -o fasta.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall phylip.c -o phylip.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall mem.c -o mem.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall misc.c -o misc.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall pairScore.c -o pairScore.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall seqManip.c -o seqManip.o graphCode.c:2:2: warning: "/*" within comment [-Wcomment] 2 | /* This file is part of PhiPack. | stats.c: In function 'PHI': stats.c:112:24: warning: variable 'states_j' set but not used [-Wunused-but-set-variable] 112 | int p_i,p_j,states_i,states_j; | ^~~~~~~~ stats.c:112:15: warning: variable 'states_i' set but not used [-Wunused-but-set-variable] 112 | int p_i,p_j,states_i,states_j; | ^~~~~~~~ gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall global.c -o global.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall profile.c -o profile.o gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall -o Profile normal.o stats.o fasta.o phylip.o mem.o misc.o pairScore.o seqManip.o global.o profile.o -lm -Wl,-z,relro -Wl,-z,now cp Profile ../ gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall -o Phi normal.o stats.o maxChi.o main.o queue.o graphCode.o fasta.o phylip.o mem.o misc.o pairScore.o seqManip.o global.o -lm -Wl,-z,relro -Wl,-z,now cp Phi ../ cd ppma_2_bmp && make make[2]: Entering directory '/build/reproducible-path/phipack-0.0.20160614/src/ppma_2_bmp' g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -o ppma_2_bmp ppma_io.C bmp_io.C ppma_2_bmp.C -lm -Wl,-z,relro -Wl,-z,now make[2]: Leaving directory '/build/reproducible-path/phipack-0.0.20160614/src/ppma_2_bmp' cp ppma_2_bmp/ppma_2_bmp ../ make[1]: Leaving directory '/build/reproducible-path/phipack-0.0.20160614/src' dh_auto_test -O--sourcedirectory=src create-stamp debian/debhelper-build-stamp dh_testroot -O--sourcedirectory=src dh_prep -O--sourcedirectory=src dh_auto_install --destdir=debian/phipack/ -O--sourcedirectory=src dh_install -O--sourcedirectory=src dh_installdocs -O--sourcedirectory=src dh_installchangelogs -O--sourcedirectory=src dh_installexamples -O--sourcedirectory=src dh_installman -O--sourcedirectory=src dh_installsystemduser -O--sourcedirectory=src dh_perl -O--sourcedirectory=src dh_link -O--sourcedirectory=src dh_strip_nondeterminism -O--sourcedirectory=src dh_compress -O--sourcedirectory=src dh_fixperms -O--sourcedirectory=src dh_missing -O--sourcedirectory=src dh_dwz -a -O--sourcedirectory=src dwz: debian/phipack/usr/lib/debian-med/bin/ppma_2_bmp: DWARF compression not beneficial - old size 158839 new size 160301 dh_strip -a -O--sourcedirectory=src dh_makeshlibs -a -O--sourcedirectory=src dh_shlibdeps -a -O--sourcedirectory=src 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 -O--sourcedirectory=src dh_gencontrol -O--sourcedirectory=src dh_md5sums -O--sourcedirectory=src dh_builddeb -O--sourcedirectory=src dpkg-deb: building package 'phipack' in '../phipack_0.0.20160614-5_arm64.deb'. dpkg-deb: building package 'phipack-dbgsym' in '../phipack-dbgsym_0.0.20160614-5_arm64.deb'. dpkg-genbuildinfo --build=binary -O../phipack_0.0.20160614-5_arm64.buildinfo dpkg-genchanges --build=binary -O../phipack_0.0.20160614-5_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/3748957/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/3748957/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/3748957 and its subdirectories I: Current time: Tue Jun 25 23:17:07 +14 2024 I: pbuilder-time-stamp: 1719307027 + false + set +x Tue Jun 25 09:17:07 UTC 2024 I: Signing ./b2/phipack_0.0.20160614-5_arm64.buildinfo as phipack_0.0.20160614-5_arm64.buildinfo.asc Tue Jun 25 09:17:07 UTC 2024 I: Signed ./b2/phipack_0.0.20160614-5_arm64.buildinfo as ./b2/phipack_0.0.20160614-5_arm64.buildinfo.asc Tue Jun 25 09:17:07 UTC 2024 - build #2 for phipack/unstable/arm64 on codethink02-arm64 done. Starting cleanup. All cleanup done. Tue Jun 25 09:17:07 UTC 2024 - reproducible_build.sh stopped running as /tmp/jenkins-script-ZOTd0tV1, removing. /srv/reproducible-results/rbuild-debian/r-b-build.Cum2YkVA: total 40 drwxr-xr-x 2 jenkins jenkins 4096 Jun 25 09:16 b1 drwxr-xr-x 2 jenkins jenkins 4096 Jun 25 09:17 b2 -rw-r--r-- 1 jenkins jenkins 2021 Sep 9 2020 phipack_0.0.20160614-5.dsc -rw------- 1 jenkins jenkins 28133 Jun 25 09:16 rbuildlog.mlrre3o /srv/reproducible-results/rbuild-debian/r-b-build.Cum2YkVA/b1: total 308 -rw-r--r-- 1 jenkins jenkins 24666 Jun 25 09:16 build.log -rw-r--r-- 1 jenkins jenkins 188404 Jun 25 09:16 phipack-dbgsym_0.0.20160614-5_arm64.deb -rw-r--r-- 1 jenkins jenkins 6792 Jun 25 09:16 phipack_0.0.20160614-5.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2021 Jun 25 09:16 phipack_0.0.20160614-5.dsc -rw-r--r-- 1 jenkins jenkins 4969 Jun 25 09:16 phipack_0.0.20160614-5_arm64.buildinfo -rw-r--r-- 1 jenkins jenkins 5851 Jun 25 09:16 phipack_0.0.20160614-5_arm64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1589 Jun 25 09:16 phipack_0.0.20160614-5_arm64.changes -rw-r--r-- 1 jenkins jenkins 49492 Jun 25 09:16 phipack_0.0.20160614-5_arm64.deb -rw-r--r-- 1 jenkins jenkins 1456 Jun 25 09:16 phipack_0.0.20160614-5_source.changes /srv/reproducible-results/rbuild-debian/r-b-build.Cum2YkVA/b2: total 300 -rw-r--r-- 1 jenkins jenkins 26611 Jun 25 09:17 build.log -rw-r--r-- 1 jenkins jenkins 188404 Jun 25 09:17 phipack-dbgsym_0.0.20160614-5_arm64.deb -rw-r--r-- 1 jenkins jenkins 6792 Jun 25 09:17 phipack_0.0.20160614-5.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2021 Jun 25 09:17 phipack_0.0.20160614-5.dsc -rw-r--r-- 1 jenkins jenkins 4969 Jun 25 09:17 phipack_0.0.20160614-5_arm64.buildinfo -rw-r--r-- 1 jenkins jenkins 5851 Jun 25 09:17 phipack_0.0.20160614-5_arm64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1589 Jun 25 09:17 phipack_0.0.20160614-5_arm64.changes -rw-r--r-- 1 jenkins jenkins 49492 Jun 25 09:17 phipack_0.0.20160614-5_arm64.deb -rw-r--r-- 1 jenkins jenkins 1456 Jun 25 09:17 phipack_0.0.20160614-5_source.changes Tue Jun 25 09:17:08 UTC 2024 I: Deleting $TMPDIR on codethink02-arm64.debian.net. Tue Jun 25 09:17:09 UTC 2024 I: phipack_0.0.20160614-5_arm64.changes: Format: 1.8 Date: Wed, 09 Sep 2020 08:30:55 +0200 Source: phipack Binary: phipack phipack-dbgsym Architecture: arm64 Version: 0.0.20160614-5 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: phipack - PHI test and other tests of recombination Closes: 968242 969552 Changes: phipack (0.0.20160614-5) unstable; urgency=medium . * Add salsa-ci file (routine-update) * Fix compiler variable to enable cross building Closes: #968242 * Force signed char on every architecture (Thanks a lot to Lennart Sorensen) Closes: #969552 Checksums-Sha1: ef1628d17566abe79ab6ff42746feb019b407e46 188404 phipack-dbgsym_0.0.20160614-5_arm64.deb 898830a2fca8607d39e9e5e8e3b608ad879e2a46 4969 phipack_0.0.20160614-5_arm64.buildinfo 964dc0fc875cd8dd1f1e324db5830ccedd2f0546 49492 phipack_0.0.20160614-5_arm64.deb Checksums-Sha256: d78a9ba6d1a25b960f5c5677ec980b1f2a75c0ff28201eafb9de4bcb5509efc2 188404 phipack-dbgsym_0.0.20160614-5_arm64.deb 4faf3b77d4ad447804b6bb8b8040af8005a3620dc95e89a7c240364032665bfb 4969 phipack_0.0.20160614-5_arm64.buildinfo 362e32b4a3d0ec2fcdd50289625997520ae44503219387948b7fef3b7461eb0d 49492 phipack_0.0.20160614-5_arm64.deb Files: 0afb9db3387ffb7e335612bd720092a1 188404 debug optional phipack-dbgsym_0.0.20160614-5_arm64.deb 5c343cef076043966ae9e96177875985 4969 science optional phipack_0.0.20160614-5_arm64.buildinfo c110ed6631df0aa6748c95a76376aa5d 49492 science optional phipack_0.0.20160614-5_arm64.deb removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/arm64/phipack_0.0.20160614-5.rbuild.log' removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/arm64/phipack_0.0.20160614-5.rbuild.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/unstable/arm64/phipack_0.0.20160614-5.build1.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/unstable/arm64/phipack_0.0.20160614-5.build2.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/buildinfo/unstable/arm64/phipack_0.0.20160614-5_arm64.buildinfo' removed '/var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/arm64/phipack_0.0.20160614-5.diff.gz' Diff of the two buildlogs: -- --- b1/build.log 2024-06-25 09:16:32.831594048 +0000 +++ b2/build.log 2024-06-25 09:17:08.750066605 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Mon Jul 28 03:38:48 -12 2025 -I: pbuilder-time-stamp: 1753717128 +I: Current time: Tue Jun 25 23:16:36 +14 2024 +I: pbuilder-time-stamp: 1719306996 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -30,52 +30,84 @@ dpkg-source: info: applying phipack.unsigned.char.fixes.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/3180969/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/3748957/tmp/hooks/D01_modify_environment starting +debug: Running on codethink02-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 Jun 25 09:16 /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/3748957/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/3748957/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' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="21" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") + BASH_VERSION='5.2.21(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 ' - DISTRIBUTION='unstable' - HOME='/root' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=unstable + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - INVOCATION_ID='cc8321323a1a486495200c8f6219933d' - 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='3180969' - PS1='# ' - PS2='> ' + INVOCATION_ID=adc56dff8484402e936ffc8e56f48a52 + 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=3748957 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.Cum2YkVA/pbuilderrc_Dj5W --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.Cum2YkVA/b1 --logfile b1/build.log phipack_0.0.20160614-5.dsc' - SUDO_GID='109' - 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.Cum2YkVA/pbuilderrc_ymWJ --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.Cum2YkVA/b2 --logfile b2/build.log phipack_0.0.20160614-5.dsc' + SUDO_GID=109 + 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 6.1.0-21-cloud-arm64 #1 SMP Debian 6.1.90-1 (2024-05-03) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-21-cloud-arm64 #1 SMP Debian 6.1.90-1 (2024-05-03) aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Jun 5 2024 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/3180969/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Jun 5 22:35 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/3748957/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -140,7 +172,7 @@ Get: 27 http://deb.debian.org/debian unstable/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian unstable/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian unstable/main arm64 debhelper all 13.16 [891 kB] -Fetched 19.2 MB in 0s (71.8 MB/s) +Fetched 19.2 MB in 0s (84.8 MB/s) debconf: delaying package configuration, since apt-utils is not installed 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 ... 19687 files and directories currently installed.) @@ -271,7 +303,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/phipack-0.0.20160614/ && 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 > ../phipack_0.0.20160614-5_source.changes +I: user script /srv/workspace/pbuilder/3748957/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/3748957/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/phipack-0.0.20160614/ && 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 > ../phipack_0.0.20160614-5_source.changes dpkg-buildpackage: info: source package phipack dpkg-buildpackage: info: source version 0.0.20160614-5 dpkg-buildpackage: info: source distribution unstable @@ -303,22 +339,22 @@ gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall main.c -o main.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall queue.c -o queue.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall graphCode.c -o graphCode.o -stats.c: In function 'PHI': gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall fasta.c -o fasta.o +gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall phylip.c -o phylip.o +gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall mem.c -o mem.o +gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall misc.c -o misc.o +gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall pairScore.c -o pairScore.o +gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall seqManip.c -o seqManip.o +graphCode.c:2:2: warning: "/*" within comment [-Wcomment] + 2 | /* This file is part of PhiPack. + | +stats.c: In function 'PHI': stats.c:112:24: warning: variable 'states_j' set but not used [-Wunused-but-set-variable] 112 | int p_i,p_j,states_i,states_j; | ^~~~~~~~ stats.c:112:15: warning: variable 'states_i' set but not used [-Wunused-but-set-variable] 112 | int p_i,p_j,states_i,states_j; | ^~~~~~~~ -gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall phylip.c -o phylip.o -graphCode.c:2:2: warning: "/*" within comment [-Wcomment] - 2 | /* This file is part of PhiPack. - | -gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall mem.c -o mem.o -gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall misc.c -o misc.o -gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall pairScore.c -o pairScore.o -gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall seqManip.c -o seqManip.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall global.c -o global.o gcc -c -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall profile.c -o profile.o gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/phipack-0.0.20160614=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -O3 -Wall -o Profile normal.o stats.o fasta.o phylip.o mem.o misc.o pairScore.o seqManip.o global.o profile.o -lm -Wl,-z,relro -Wl,-z,now @@ -361,8 +397,8 @@ dh_gencontrol -O--sourcedirectory=src dh_md5sums -O--sourcedirectory=src dh_builddeb -O--sourcedirectory=src -dpkg-deb: building package 'phipack-dbgsym' in '../phipack-dbgsym_0.0.20160614-5_arm64.deb'. dpkg-deb: building package 'phipack' in '../phipack_0.0.20160614-5_arm64.deb'. +dpkg-deb: building package 'phipack-dbgsym' in '../phipack-dbgsym_0.0.20160614-5_arm64.deb'. dpkg-genbuildinfo --build=binary -O../phipack_0.0.20160614-5_arm64.buildinfo dpkg-genchanges --build=binary -O../phipack_0.0.20160614-5_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -370,12 +406,14 @@ 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/3748957/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/3748957/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/3180969 and its subdirectories -I: Current time: Mon Jul 28 03:39:29 -12 2025 -I: pbuilder-time-stamp: 1753717169 +I: removing directory /srv/workspace/pbuilder/3748957 and its subdirectories +I: Current time: Tue Jun 25 23:17:07 +14 2024 +I: pbuilder-time-stamp: 1719307027 Compressing the 2nd log... /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/arm64/phipack_0.0.20160614-5.diff: 75.2% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/arm64/phipack_0.0.20160614-5.diff.gz b2/build.log: 77.0% -- replaced with stdout Compressing the 1st log... b1/build.log: 77.9% -- replaced with stdout Tue Jun 25 09:17:10 UTC 2024 I: diffoscope 271 will be used to compare the two builds: ++ date -u +%s + DIFFOSCOPE_STAMP=/var/log/reproducible-builds/diffoscope_stamp_phipack_unstable_arm64_1719307030 + touch /var/log/reproducible-builds/diffoscope_stamp_phipack_unstable_arm64_1719307030 + RESULT=0 + systemd-run '--description=diffoscope on phipack/0.0.20160614-5 in unstable/arm64' --slice=rb-build-diffoscope.slice -u rb-diffoscope-arm64_21-18487 '--property=SuccessExitStatus=1 124' --user --send-sighup --pipe --wait -E TMPDIR timeout 155m nice schroot --directory /srv/reproducible-results/rbuild-debian/r-b-build.Cum2YkVA --run-session -c jenkins-reproducible-unstable-diffoscope-dcb84bd0-a658-47f5-8467-e3c3002700cf -- sh -c 'export TMPDIR=/srv/reproducible-results/rbuild-debian/r-b-build.Cum2YkVA/dbd-tmp-H0yY1dV ; timeout 150m diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.Cum2YkVA/phipack_0.0.20160614-5.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.Cum2YkVA/phipack_0.0.20160614-5.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.Cum2YkVA/phipack_0.0.20160614-5.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.Cum2YkVA/b1/phipack_0.0.20160614-5_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.Cum2YkVA/b2/phipack_0.0.20160614-5_arm64.changes' + false + set +x Running as unit: rb-diffoscope-arm64_21-18487.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.Cum2YkVA/phipack_0.0.20160614-5.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.Cum2YkVA/phipack_0.0.20160614-5.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.Cum2YkVA/phipack_0.0.20160614-5.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.Cum2YkVA/b1/phipack_0.0.20160614-5_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.Cum2YkVA/b2/phipack_0.0.20160614-5_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 abc.DotChangesFile ## main (total time: 0.357s) 0.357s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.020s) 0.020s 12 calls diffoscope.comparators.binary.FilesystemFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 690ms CPU time consumed: 691ms _ _ _ _ __ | |__ (_)_ __ __ _ ___| | __ | '_ \| '_ \| | '_ \ / _` |/ __| |/ / | |_) | | | | | |_) | (_| | (__| < | .__/|_| |_|_| .__/ \__,_|\___|_|\_\ |_| |_| Tue Jun 25 09:17:11 UTC 2024 I: diffoscope 271 found no differences in the changes files, and a .buildinfo file also exists. Tue Jun 25 09:17:11 UTC 2024 I: phipack from unstable built successfully and reproducibly on arm64. INSERT 0 1 INSERT 0 1 DELETE 1 [2024-06-25 09:17:12] INFO: Starting at 2024-06-25 09:17:12.437501 [2024-06-25 09:17:12] INFO: Generating the pages of 1 package(s) [2024-06-25 09:17:12] CRITICAL: https://tests.reproducible-builds.org/debian/unstable/arm64/phipack didn't produce a buildlog, even though it has been built. [2024-06-25 09:17:12] INFO: Finished at 2024-06-25 09:17:12.918629, took: 0:00:00.481137 Tue Jun 25 09:17:13 UTC 2024 - successfully updated the database and updated https://tests.reproducible-builds.org/debian/rb-pkg/unstable/arm64/phipack.html Tue Jun 25 09:17:13 UTC 2024 I: Submitting .buildinfo files to external archives: Tue Jun 25 09:17:13 UTC 2024 I: Submitting 8.0K b1/phipack_0.0.20160614-5_arm64.buildinfo.asc https://buildinfo.debian.net/898830a2fca8607d39e9e5e8e3b608ad879e2a46/phipack_0.0.20160614-5_arm64 Tue Jun 25 09:17:13 UTC 2024 I: Submitting 8.0K b2/phipack_0.0.20160614-5_arm64.buildinfo.asc https://buildinfo.debian.net/99dcb8c07da05000ac62d30125ceb0bf190ecf11/phipack_0.0.20160614-5_arm64 Tue Jun 25 09:17:14 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Tue Jun 25 09:17:14 UTC 2024 I: Done submitting .buildinfo files. Tue Jun 25 09:17:14 UTC 2024 I: Removing signed phipack_0.0.20160614-5_arm64.buildinfo.asc files: removed './b1/phipack_0.0.20160614-5_arm64.buildinfo.asc' removed './b2/phipack_0.0.20160614-5_arm64.buildinfo.asc' 1719307034 arm64 unstable phipack Starting cleanup. /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/arm64/phipack_0.0.20160614-5.rbuild.log: 74.2% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/arm64/phipack_0.0.20160614-5.rbuild.log.gz [2024-06-25 09:17:14] INFO: Starting at 2024-06-25 09:17:14.892016 [2024-06-25 09:17:14] INFO: Generating the pages of 1 package(s) [2024-06-25 09:17:15] INFO: Finished at 2024-06-25 09:17:15.368501, took: 0:00:00.476493 All cleanup done. Tue Jun 25 09:17:15 UTC 2024 - total duration: 0h 1m 36s. Tue Jun 25 09:17:15 UTC 2024 - reproducible_build.sh stopped running as /tmp/jenkins-script-WsQ5Tetz, removing. Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 1min 40.565s CPU time consumed: 8.183s