Wed Nov 13 06:58:20 UTC 2024 I: starting to build tm-align/trixie/amd64 on jenkins on '2024-11-13 06:58' Wed Nov 13 06:58:20 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_37/37021/console.log Wed Nov 13 06:58:20 UTC 2024 I: Downloading source for trixie/tm-align=20190822+dfsg-3 --2024-11-13 06:58:20-- http://deb.debian.org/debian/pool/main/t/tm-align/tm-align_20190822%2bdfsg-3.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2077 (2.0K) [text/prs.lines.tag] Saving to: ‘tm-align_20190822+dfsg-3.dsc’ 0K .. 100% 271M=0s 2024-11-13 06:58:20 (271 MB/s) - ‘tm-align_20190822+dfsg-3.dsc’ saved [2077/2077] Wed Nov 13 06:58:20 UTC 2024 I: tm-align_20190822+dfsg-3.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: tm-align Binary: tm-align Architecture: any Version: 20190822+dfsg-3 Maintainer: Debian Med Packaging Team Uploaders: Steffen Moeller , Andreas Tille Homepage: https://zhanglab.ccmb.med.umich.edu/TM-align/ Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/med-team/tm-align Vcs-Git: https://salsa.debian.org/med-team/tm-align.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), gfortran Package-List: tm-align deb science optional arch=any Checksums-Sha1: 3b8f4daf34f2cf76faf07081fe60973f226773fc 52784 tm-align_20190822+dfsg.orig.tar.xz d41d9bb1a6992321f27df6809eca29952ddcba2d 817932 tm-align_20190822+dfsg-3.debian.tar.xz Checksums-Sha256: b124e9056024e170462b61b01865dc65abad7f41b933a955ba5d84ebaddcac56 52784 tm-align_20190822+dfsg.orig.tar.xz dce03307387b00beb54c834c0c02c05cd1bc1447dbde430def521440ffa777f8 817932 tm-align_20190822+dfsg-3.debian.tar.xz Files: 0556ef655127ae3fe0497026d1bc1c22 52784 tm-align_20190822+dfsg.orig.tar.xz b9711933993102b253786f2a804d6be9 817932 tm-align_20190822+dfsg-3.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmboFMARHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtHuIg/9FLNKsWf+T6whUoVtqDgLwZCjPXqsH0dL og39pKnKDd7GeZBm1EKxLpisWJtdxLIUfH/119ameSnmRcKhfklCPVyFx1d/sDRw jTqQSi0DjQAICi9gqjJqWRKMcjG051FfamV5YVgRNC1m4Z6sz7TO4cHAh7MtU4cz OuC/+HuYg+265vL4o3U/nqBK66dOp6zCokxUVnJRh/ILsqSSNAik3F0ufVmCoklc Xs+cJm55NIpGRFUq/DjXCfeDp3+9JFB2wculO6+/+PDup0SD0R/j7xG0y0ZWv0MF YjWT0asvfLJGsISJeocFMiJ2lNK7j0Dj4HzrR4qx+6OHwHidrLhDmIJhzuRYn3TG Ut6XI0/YONNuM4I0ZEhaxcenpgihjTq7Z9hagw9ka62/fMb+5kVQWPOJPi2qy/3F R/5oSCtfKZRTNaA0ocoNUBV9n59rTQp/u8VVFbNGpaPG5U3F2FYiGlTet5z8ADXu tv5yLVPUautjXzgMdUIdljyB2NZocJXzg8htnSoCIBA7gEb/vdKdOOiifC5chPsT 8mWcy0sOdjd0fucmW+8mricyb6BYUNvWnNDOX1vQVLJ7BtD/cU7UWlN98RT7G8/T m+nfUamsvij8KAtwIm1vD2c0LQdMPSxkwrjmQLt7r2RI6lXxWoNTKrze3CpGsn4I 1mx60SlqHxE= =Fjsn -----END PGP SIGNATURE----- Wed Nov 13 06:58:20 UTC 2024 I: Checking whether the package is not for us Wed Nov 13 06:58:20 UTC 2024 I: Starting 1st build on remote node infom01-amd64.debian.net. Wed Nov 13 06:58:20 UTC 2024 I: Preparing to do remote build '1' on infom01-amd64.debian.net. Wed Nov 13 06:58:52 UTC 2024 I: Deleting $TMPDIR on infom01-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Tue Nov 12 18:58:22 -12 2024 I: pbuilder-time-stamp: 1731481102 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [tm-align_20190822+dfsg-3.dsc] I: copying [./tm-align_20190822+dfsg.orig.tar.xz] I: copying [./tm-align_20190822+dfsg-3.debian.tar.xz] I: Extracting source gpgv: Signature made Mon Sep 16 11:21:36 2024 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 ./tm-align_20190822+dfsg-3.dsc: no acceptable signature found dpkg-source: info: extracting tm-align in tm-align-20190822+dfsg dpkg-source: info: unpacking tm-align_20190822+dfsg.orig.tar.xz dpkg-source: info: unpacking tm-align_20190822+dfsg-3.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3957859/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='12b5e90bd7934c6595537bebf6db7275' 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='3957859' 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.plyWft1I/pbuilderrc_KKf2 --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.plyWft1I/b1 --logfile b1/build.log tm-align_20190822+dfsg-3.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' I: uname -a Linux infom01-amd64 6.1.0-27-cloud-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.115-1 (2024-11-01) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/3957859/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), gfortran dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19970 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on gfortran; however: Package gfortran 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} gfortran{a} gfortran-14{a} gfortran-14-x86-64-linux-gnu{a} gfortran-x86-64-linux-gnu{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libgfortran-14-dev{a} libgfortran5{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, 35 newly installed, 0 to remove and 0 not upgraded. Need to get 33.3 MB of archives. After unpacking 121 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 2 http://deb.debian.org/debian trixie/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 3 http://deb.debian.org/debian trixie/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 4 http://deb.debian.org/debian trixie/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 5 http://deb.debian.org/debian trixie/main amd64 gettext-base amd64 0.22.5-2 [200 kB] Get: 6 http://deb.debian.org/debian trixie/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 7 http://deb.debian.org/debian trixie/main amd64 groff-base amd64 1.23.0-5 [1181 kB] Get: 8 http://deb.debian.org/debian trixie/main amd64 bsdextrautils amd64 2.40.2-9 [97.2 kB] Get: 9 http://deb.debian.org/debian trixie/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 10 http://deb.debian.org/debian trixie/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 11 http://deb.debian.org/debian trixie/main amd64 m4 amd64 1.4.19-4 [287 kB] Get: 12 http://deb.debian.org/debian trixie/main amd64 autoconf all 2.72-3 [493 kB] Get: 13 http://deb.debian.org/debian trixie/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian trixie/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 15 http://deb.debian.org/debian trixie/main amd64 autopoint all 0.22.5-2 [723 kB] Get: 16 http://deb.debian.org/debian trixie/main amd64 libdebhelper-perl all 13.20 [89.7 kB] Get: 17 http://deb.debian.org/debian trixie/main amd64 libtool all 2.4.7-8 [517 kB] Get: 18 http://deb.debian.org/debian trixie/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian trixie/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian trixie/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 21 http://deb.debian.org/debian trixie/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 22 http://deb.debian.org/debian trixie/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 23 http://deb.debian.org/debian trixie/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 24 http://deb.debian.org/debian trixie/main amd64 libicu72 amd64 72.1-5+b1 [9423 kB] Get: 25 http://deb.debian.org/debian trixie/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.1 [699 kB] Get: 26 http://deb.debian.org/debian trixie/main amd64 gettext amd64 0.22.5-2 [1601 kB] Get: 27 http://deb.debian.org/debian trixie/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian trixie/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian trixie/main amd64 debhelper all 13.20 [915 kB] Get: 30 http://deb.debian.org/debian trixie/main amd64 libgfortran5 amd64 14.2.0-8 [836 kB] Get: 31 http://deb.debian.org/debian trixie/main amd64 libgfortran-14-dev amd64 14.2.0-8 [878 kB] Get: 32 http://deb.debian.org/debian trixie/main amd64 gfortran-14-x86-64-linux-gnu amd64 14.2.0-8 [11.7 MB] Get: 33 http://deb.debian.org/debian trixie/main amd64 gfortran-14 amd64 14.2.0-8 [12.2 kB] Get: 34 http://deb.debian.org/debian trixie/main amd64 gfortran-x86-64-linux-gnu amd64 4:14.2.0-1 [1284 B] Get: 35 http://deb.debian.org/debian trixie/main amd64 gfortran amd64 4:14.2.0-1 [1436 B] Fetched 33.3 MB in 0s (103 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 ... 19970 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3+b1_amd64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.22.5-2_amd64.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../05-libuchardet0_0.0.8-1+b2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-5_amd64.deb ... Unpacking groff-base (1.23.0-5) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.40.2-9_amd64.deb ... Unpacking bsdextrautils (2.40.2-9) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../08-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.13.0-1_amd64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-4_amd64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../13-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_0.22.5-2_all.deb ... Unpacking autopoint (0.22.5-2) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.20_all.deb ... Unpacking libdebhelper-perl (13.20) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.4.7-8_all.deb ... Unpacking libtool (2.4.7-8) ... 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:amd64. Preparing to unpack .../21-libelf1t64_0.192-4_amd64.deb ... Unpacking libelf1t64:amd64 (0.192-4) ... Selecting previously unselected package dwz. Preparing to unpack .../22-dwz_0.15-1+b1_amd64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../23-libicu72_72.1-5+b1_amd64.deb ... Unpacking libicu72:amd64 (72.1-5+b1) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../24-libxml2_2.12.7+dfsg+really2.9.14-0.1_amd64.deb ... Unpacking libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.1) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_0.22.5-2_amd64.deb ... Unpacking gettext (0.22.5-2) ... 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_13.20_all.deb ... Unpacking debhelper (13.20) ... Selecting previously unselected package libgfortran5:amd64. Preparing to unpack .../29-libgfortran5_14.2.0-8_amd64.deb ... Unpacking libgfortran5:amd64 (14.2.0-8) ... Selecting previously unselected package libgfortran-14-dev:amd64. Preparing to unpack .../30-libgfortran-14-dev_14.2.0-8_amd64.deb ... Unpacking libgfortran-14-dev:amd64 (14.2.0-8) ... Selecting previously unselected package gfortran-14-x86-64-linux-gnu. Preparing to unpack .../31-gfortran-14-x86-64-linux-gnu_14.2.0-8_amd64.deb ... Unpacking gfortran-14-x86-64-linux-gnu (14.2.0-8) ... Selecting previously unselected package gfortran-14. Preparing to unpack .../32-gfortran-14_14.2.0-8_amd64.deb ... Unpacking gfortran-14 (14.2.0-8) ... Selecting previously unselected package gfortran-x86-64-linux-gnu. Preparing to unpack .../33-gfortran-x86-64-linux-gnu_4%3a14.2.0-1_amd64.deb ... Unpacking gfortran-x86-64-linux-gnu (4:14.2.0-1) ... Selecting previously unselected package gfortran. Preparing to unpack .../34-gfortran_4%3a14.2.0-1_amd64.deb ... Unpacking gfortran (4:14.2.0-1) ... Setting up libpipeline1:amd64 (1.5.8-1) ... Setting up libicu72:amd64 (72.1-5+b1) ... Setting up bsdextrautils (2.40.2-9) ... Setting up libmagic-mgc (1:5.45-3+b1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.20) ... Setting up libmagic1t64:amd64 (1:5.45-3+b1) ... Setting up gettext-base (0.22.5-2) ... Setting up m4 (1.4.19-4) ... Setting up file (1:5.45-3+b1) ... Setting up libelf1t64:amd64 (0.192-4) ... Setting up autotools-dev (20220109.1) ... Setting up autopoint (0.22.5-2) ... Setting up libgfortran5:amd64 (14.2.0-8) ... Setting up autoconf (2.72-3) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libuchardet0:amd64 (0.0.8-1+b2) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.1) ... 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 libgfortran-14-dev:amd64 (14.2.0-8) ... Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up gettext (0.22.5-2) ... Setting up libtool (2.4.7-8) ... Setting up gfortran-14-x86-64-linux-gnu (14.2.0-8) ... 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 (1.23.0-5) ... Setting up gfortran-14 (14.2.0-8) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up gfortran-x86-64-linux-gnu (4:14.2.0-1) ... Setting up gfortran (4:14.2.0-1) ... update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode Setting up debhelper (13.20) ... Processing triggers for libc-bin (2.40-3) ... 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/tm-align-20190822+dfsg/ && 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 > ../tm-align_20190822+dfsg-3_source.changes dpkg-buildpackage: info: source package tm-align dpkg-buildpackage: info: source version 20190822+dfsg-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/tm-align-20190822+dfsg' for src in `ls *.f` ; do \ rm -f `basename ${src} .f` ; \ done dh_clean rm -f debian/debhelper-build-stamp rm -rf debian/.debhelper/ rm -f -- debian/tm-align.substvars debian/files rm -fr -- debian/tm-align/ debian/tmp/ find . \( \( \ \( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \ \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \ -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \ -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \ -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \ \) -exec rm -f {} + \) -o \ \( -type d -a \( -name autom4te.cache -o -name __pycache__ \) -prune -exec rm -rf {} + \) \) make[1]: Leaving directory '/build/reproducible-path/tm-align-20190822+dfsg' dh_clean rm -f debian/debhelper-build-stamp rm -rf debian/.debhelper/ rm -f -- debian/tm-align.substvars debian/files rm -fr -- debian/tm-align/ debian/tmp/ find . \( \( \ \( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \ \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \ -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \ -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \ -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \ \) -exec rm -f {} + \) -o \ \( -type d -a \( -name autom4te.cache -o -name __pycache__ \) -prune -exec rm -rf {} + \) \) debian/rules binary dh binary dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/tm-align-20190822+dfsg' for src in `ls *.f` ; do \ gfortran -ffast-math -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tm-align-20190822+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -lm -o `basename ${src} .f` ${src} ; \ done f951: Warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for Fortran f951: Warning: command-line option '-Wformat=1' is valid for C/C++/ObjC/ObjC++ but not for Fortran f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran f951: Warning: '-Werror=' argument '-Werror=implicit-function-declaration' is not valid for Fortran f951: Warning: command-line option '-Wformat=1' is valid for C/C++/ObjC/ObjC++ but not for Fortran f951: Warning: '-Werror=' argument '-Werror=format-security' is not valid for Fortran make[1]: Leaving directory '/build/reproducible-path/tm-align-20190822+dfsg' create-stamp debian/debhelper-build-stamp dh_prep rm -f -- debian/tm-align.substvars rm -fr -- debian/.debhelper/generated/tm-align/ debian/tm-align/ debian/tmp/ dh_auto_install --destdir=debian/tm-align/ install -m0755 -d /build/reproducible-path/tm-align-20190822\+dfsg/debian/tm-align dh_install install -m0755 -d debian/tm-align/usr/bin cp --reflink=auto -a ./TMalign ./TMscore debian/tm-align/usr/bin/ dh_installdocs install -m0755 -d debian/tm-align/usr/share/doc/tm-align install -m0755 -d debian/tm-align/usr/share/doc/tm-align cp --reflink=auto -a ./debian/tests/run-unit-test debian/tm-align/usr/share/doc/tm-align cp --reflink=auto -a ./debian/README.test debian/tm-align/usr/share/doc/tm-align chmod -R u\+rw,go=rX debian/tm-align/usr/share/doc install -p -m0644 debian/README.Debian debian/tm-align/usr/share/doc/tm-align/README.Debian install -p -m0644 debian/copyright debian/tm-align/usr/share/doc/tm-align/copyright dh_installchangelogs install -m0755 -d debian/tm-align/usr/share/doc/tm-align install -p -m0644 debian/.debhelper/generated/tm-align/dh_installchangelogs.dch.trimmed debian/tm-align/usr/share/doc/tm-align/changelog.Debian dh_installexamples install -m0755 -d debian/tm-align/usr/share/doc/tm-align/examples cp --reflink=auto -a ./debian/examples/1ni7.pdb.gz debian/tm-align/usr/share/doc/tm-align/examples cp --reflink=auto -a ./debian/examples/5eep.pdb.gz debian/tm-align/usr/share/doc/tm-align/examples dh_installman install -m0755 -d debian/tm-align/usr/share/man/man1/ install -p -m0644 ./debian/TMalign.1 debian/tm-align/usr/share/man/man1/TMalign.1 install -m0755 -d debian/tm-align/usr/share/man/man1/ install -p -m0644 ./debian/TMscore.1 debian/tm-align/usr/share/man/man1/TMscore.1 man-recode --to-code UTF-8 --suffix .dh-new debian/tm-align/usr/share/man/man1/TMalign.1 man-recode --to-code UTF-8 --suffix .dh-new debian/tm-align/usr/share/man/man1/TMscore.1 mv debian/tm-align/usr/share/man/man1/TMscore.1.dh-new debian/tm-align/usr/share/man/man1/TMscore.1 chmod 0644 -- debian/tm-align/usr/share/man/man1/TMscore.1 mv debian/tm-align/usr/share/man/man1/TMalign.1.dh-new debian/tm-align/usr/share/man/man1/TMalign.1 chmod 0644 -- debian/tm-align/usr/share/man/man1/TMalign.1 dh_perl dh_link dh_strip_nondeterminism Using 1726484467 as canonical time Normalizing debian/tm-align/usr/share/doc/tm-align/examples/5eep.pdb.gz using File::StripNondeterminism::handlers::gzip Normalizing debian/tm-align/usr/share/doc/tm-align/examples/1ni7.pdb.gz using File::StripNondeterminism::handlers::gzip dh_compress cd debian/tm-align chmod a-x usr/share/doc/tm-align/changelog.Debian usr/share/man/man1/TMalign.1 usr/share/man/man1/TMscore.1 gzip -9nf usr/share/doc/tm-align/changelog.Debian usr/share/man/man1/TMalign.1 usr/share/man/man1/TMscore.1 cd '/build/reproducible-path/tm-align-20190822+dfsg' dh_fixperms find debian/tm-align ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/tm-align/usr/share/doc -type f -a -true -a ! -regex 'debian/tm-align/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/tm-align/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/tm-align/usr/share/man -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/tm-align -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/tm-align/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x dh_missing dh_dwz -a install -m0755 -d debian/tm-align/usr/lib/debug/.dwz/x86_64-linux-gnu dwz -mdebian/tm-align/usr/lib/debug/.dwz/x86_64-linux-gnu/tm-align.debug -M/usr/lib/debug/.dwz/x86_64-linux-gnu/tm-align.debug -- debian/tm-align/usr/bin/TMalign debian/tm-align/usr/bin/TMscore objcopy --compress-debug-sections debian/tm-align/usr/lib/debug/.dwz/x86_64-linux-gnu/tm-align.debug chmod 0644 -- debian/tm-align/usr/lib/debug/.dwz/x86_64-linux-gnu/tm-align.debug dh_strip -a install -m0755 -d debian/.debhelper/tm-align/dbgsym-root/usr/lib/debug/.build-id/fa objcopy --only-keep-debug --compress-debug-sections debian/tm-align/usr/bin/TMalign debian/.debhelper/tm-align/dbgsym-root/usr/lib/debug/.build-id/fa/0e3dd132153bdea9446ab2a0ed5b20d1d6e811.debug chmod 0644 -- debian/.debhelper/tm-align/dbgsym-root/usr/lib/debug/.build-id/fa/0e3dd132153bdea9446ab2a0ed5b20d1d6e811.debug strip --remove-section=.comment --remove-section=.note debian/tm-align/usr/bin/TMalign objcopy --add-gnu-debuglink debian/.debhelper/tm-align/dbgsym-root/usr/lib/debug/.build-id/fa/0e3dd132153bdea9446ab2a0ed5b20d1d6e811.debug debian/tm-align/usr/bin/TMalign install -m0755 -d debian/.debhelper/tm-align/dbgsym-root/usr/lib/debug/.build-id/1d objcopy --only-keep-debug --compress-debug-sections debian/tm-align/usr/bin/TMscore debian/.debhelper/tm-align/dbgsym-root/usr/lib/debug/.build-id/1d/48af1399ab482c18fd3ce314222d392a4aaee7.debug chmod 0644 -- debian/.debhelper/tm-align/dbgsym-root/usr/lib/debug/.build-id/1d/48af1399ab482c18fd3ce314222d392a4aaee7.debug strip --remove-section=.comment --remove-section=.note debian/tm-align/usr/bin/TMscore objcopy --add-gnu-debuglink debian/.debhelper/tm-align/dbgsym-root/usr/lib/debug/.build-id/1d/48af1399ab482c18fd3ce314222d392a4aaee7.debug debian/tm-align/usr/bin/TMscore install -m0755 -d debian/.debhelper/tm-align/dbgsym-root/usr/lib/debug/.dwz cp --reflink=auto -a debian/tm-align/usr/lib/debug/.dwz/x86_64-linux-gnu debian/.debhelper/tm-align/dbgsym-root/usr/lib/debug/.dwz rm -fr debian/tm-align/usr/lib/debug/.dwz rmdir -p --ignore-fail-on-non-empty debian/tm-align/usr/lib/debug install -m0755 -d debian/.debhelper/tm-align/dbgsym-root/usr/share/doc ln -s tm-align debian/.debhelper/tm-align/dbgsym-root/usr/share/doc/tm-align-dbgsym install -m0755 -d debian/.debhelper/tm-align dh_makeshlibs -a rm -f debian/tm-align/DEBIAN/shlibs dh_shlibdeps -a install -m0755 -d debian/tm-align/DEBIAN dpkg-shlibdeps -Tdebian/tm-align.substvars debian/tm-align/usr/bin/TMalign debian/tm-align/usr/bin/TMscore dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/tm-align/usr/bin/TMalign debian/tm-align/usr/bin/TMscore were not linked against libgcc_s.so.1 (they use none of the library's symbols) dh_installdeb install -m0755 -d debian/tm-align/DEBIAN dh_gencontrol install -m0755 -d debian/tm-align/DEBIAN echo misc:Depends= >> debian/tm-align.substvars echo misc:Pre-Depends= >> debian/tm-align.substvars install -m0755 -d debian/.debhelper/tm-align/dbgsym-root/DEBIAN dpkg-gencontrol -ptm-align -ldebian/changelog -Tdebian/tm-align.substvars -cdebian/control -Pdebian/.debhelper/tm-align/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -DAuto-Built-Package=debug-symbols -UProtected -UBuilt-Using -UStatic-Built-Using -DPackage=tm-align-dbgsym "-DDepends=tm-align (= \${binary:Version})" "-DDescription=debug symbols for tm-align" "-DBuild-Ids=1d48af1399ab482c18fd3ce314222d392a4aaee7 fa0e3dd132153bdea9446ab2a0ed5b20d1d6e811" -DSection=debug -UMulti-Arch -UReplaces -UBreaks chmod 0644 -- debian/.debhelper/tm-align/dbgsym-root/DEBIAN/control dpkg-gencontrol -ptm-align -ldebian/changelog -Tdebian/tm-align.substvars -cdebian/control -Pdebian/tm-align chmod 0644 -- debian/tm-align/DEBIAN/control dh_md5sums install -m0755 -d debian/tm-align/DEBIAN cd debian/tm-align >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/tm-align/DEBIAN/md5sums install -m0755 -d debian/.debhelper/tm-align/dbgsym-root/DEBIAN cd debian/.debhelper/tm-align/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/.debhelper/tm-align/dbgsym-root/DEBIAN/md5sums dh_builddeb dpkg-deb --root-owner-group --build debian/tm-align .. dpkg-deb --root-owner-group --build debian/.debhelper/tm-align/dbgsym-root .. dpkg-deb: building package 'tm-align-dbgsym' in '../tm-align-dbgsym_20190822+dfsg-3_amd64.deb'. dpkg-deb: building package 'tm-align' in '../tm-align_20190822+dfsg-3_amd64.deb'. dpkg-genbuildinfo --build=binary -O../tm-align_20190822+dfsg-3_amd64.buildinfo dpkg-genchanges --build=binary -O../tm-align_20190822+dfsg-3_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/3957859 and its subdirectories I: Current time: Tue Nov 12 18:58:51 -12 2024 I: pbuilder-time-stamp: 1731481131 Wed Nov 13 06:58:53 UTC 2024 I: 1st build successful. Starting 2nd build on remote node infom02-amd64.debian.net. Wed Nov 13 06:58:53 UTC 2024 I: Preparing to do remote build '2' on infom02-amd64.debian.net. Wed Nov 13 06:59:31 UTC 2024 I: Deleting $TMPDIR on infom02-amd64.debian.net. Wed Nov 13 06:59:32 UTC 2024 I: tm-align_20190822+dfsg-3_amd64.changes: Format: 1.8 Date: Mon, 16 Sep 2024 13:01:07 +0200 Source: tm-align Binary: tm-align tm-align-dbgsym Architecture: amd64 Version: 20190822+dfsg-3 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: tm-align - structural alignment of proteins Changes: tm-align (20190822+dfsg-3) unstable; urgency=medium . * Remove Tim Booth since address is bouncing (Thank you for your work on this package, Tim) * Standards-Version: 4.7.0 (routine-update) * debhelper-compat 13 (routine-update) * Rules-Requires-Root: no (routine-update) * Secure URI in watch file Checksums-Sha1: 3bce4b0b4901ff6a146329aa7e9932ce34af6020 71036 tm-align-dbgsym_20190822+dfsg-3_amd64.deb 186ff4eb82dc0993d237dadf7986937bc0106938 5204 tm-align_20190822+dfsg-3_amd64.buildinfo e02120dcbc8abf80487bc48d96db2ce5ac427a70 866576 tm-align_20190822+dfsg-3_amd64.deb Checksums-Sha256: 35635451619d84513af1cf42825987683c5d5191061010ec02f194d981df45f1 71036 tm-align-dbgsym_20190822+dfsg-3_amd64.deb b7fee0ccda3210db6142351ba8ce4c1ec1e0ea15b232cf93ccc41cb1bf60799f 5204 tm-align_20190822+dfsg-3_amd64.buildinfo 6752989a2d1b180200ac30406f165b9c23ec8a97dfabf755dba964b5ff3a8bec 866576 tm-align_20190822+dfsg-3_amd64.deb Files: c46e8a457dcafdd5dc086d25ef3740cd 71036 debug optional tm-align-dbgsym_20190822+dfsg-3_amd64.deb 02a8998cfaf9fb6d81bdf7d8a8ec3fa5 5204 science optional tm-align_20190822+dfsg-3_amd64.buildinfo 6114b2dcb8b4c979ecd40f9283336f04 866576 science optional tm-align_20190822+dfsg-3_amd64.deb Wed Nov 13 06:59:33 UTC 2024 I: diffoscope 283 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_37-37021.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.plyWft1I/tm-align_20190822+dfsg-3.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.plyWft1I/tm-align_20190822+dfsg-3.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.plyWft1I/tm-align_20190822+dfsg-3.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.plyWft1I/b1/tm-align_20190822+dfsg-3_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.plyWft1I/b2/tm-align_20190822+dfsg-3_amd64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.388s) 0.388s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.027s) 0.027s 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: 719ms CPU time consumed: 717ms Wed Nov 13 06:59:34 UTC 2024 I: diffoscope 283 found no differences in the changes files, and a .buildinfo file also exists. Wed Nov 13 06:59:34 UTC 2024 I: tm-align from trixie built successfully and reproducibly on amd64. Wed Nov 13 06:59:35 UTC 2024 I: Submitting .buildinfo files to external archives: Wed Nov 13 06:59:35 UTC 2024 I: Submitting 8.0K b1/tm-align_20190822+dfsg-3_amd64.buildinfo.asc Wed Nov 13 06:59:36 UTC 2024 I: Submitting 8.0K b2/tm-align_20190822+dfsg-3_amd64.buildinfo.asc Wed Nov 13 06:59:37 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Wed Nov 13 06:59:37 UTC 2024 I: Done submitting .buildinfo files. Wed Nov 13 06:59:37 UTC 2024 I: Removing signed tm-align_20190822+dfsg-3_amd64.buildinfo.asc files: removed './b1/tm-align_20190822+dfsg-3_amd64.buildinfo.asc' removed './b2/tm-align_20190822+dfsg-3_amd64.buildinfo.asc'