Sat Sep 6 10:42:44 UTC 2025 I: starting to build tm-align/forky/amd64 on jenkins on '2025-09-06 10:42' Sat Sep 6 10:42:44 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_35/76979/console.log Sat Sep 6 10:42:44 UTC 2025 I: Downloading source for forky/tm-align=20190822+dfsg-3 --2025-09-06 10:42:45-- 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% 222M=0s 2025-09-06 10:42:45 (222 MB/s) - ‘tm-align_20190822+dfsg-3.dsc’ saved [2077/2077] Sat Sep 6 10:42:45 UTC 2025 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----- Sat Sep 6 10:42:45 UTC 2025 I: Checking whether the package is not for us Sat Sep 6 10:42:45 UTC 2025 I: Starting 1st build on remote node infom01-amd64.debian.net. Sat Sep 6 10:42:45 UTC 2025 I: Preparing to do remote build '1' on infom01-amd64.debian.net. Sat Sep 6 10:43:18 UTC 2025 I: Deleting $TMPDIR on infom01-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Fri Sep 5 22:42:46 -12 2025 I: pbuilder-time-stamp: 1757155366 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [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 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/555863/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='forky' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='cc214f9ccb2848de97cb4704cc917fe4' 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='555863' 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.v7NTEGXP/pbuilderrc_Eqgn --distribution forky --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.v7NTEGXP/b1 --logfile b1/build.log tm-align_20190822+dfsg-3.dsc' SUDO_GID='109' SUDO_HOME='/var/lib/jenkins' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' I: uname -a Linux infom01-amd64 6.12.41+deb13-cloud-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.41-1 (2025-08-12) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/555863/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 ... 19897 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} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libtool{a} libuchardet0{a} libunistring5{a} libxml2-16{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 35 newly installed, 0 to remove and 0 not upgraded. Need to get 24.7 MB of archives. After unpacking 89.1 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian forky/main amd64 sensible-utils all 0.0.26 [27.0 kB] Get: 2 http://deb.debian.org/debian forky/main amd64 libmagic-mgc amd64 1:5.46-5 [338 kB] Get: 3 http://deb.debian.org/debian forky/main amd64 libmagic1t64 amd64 1:5.46-5 [109 kB] Get: 4 http://deb.debian.org/debian forky/main amd64 file amd64 1:5.46-5 [43.6 kB] Get: 5 http://deb.debian.org/debian forky/main amd64 gettext-base amd64 0.23.1-2+b1 [244 kB] Get: 6 http://deb.debian.org/debian forky/main amd64 libuchardet0 amd64 0.0.8-2 [68.5 kB] Get: 7 http://deb.debian.org/debian forky/main amd64 groff-base amd64 1.23.0-9 [1187 kB] Get: 8 http://deb.debian.org/debian forky/main amd64 bsdextrautils amd64 2.41.1-1 [94.7 kB] Get: 9 http://deb.debian.org/debian forky/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 10 http://deb.debian.org/debian forky/main amd64 man-db amd64 2.13.1-1 [1469 kB] Get: 11 http://deb.debian.org/debian forky/main amd64 m4 amd64 1.4.20-1 [324 kB] Get: 12 http://deb.debian.org/debian forky/main amd64 autoconf all 2.72-3.1 [494 kB] Get: 13 http://deb.debian.org/debian forky/main amd64 autotools-dev all 20240727.1 [60.2 kB] Get: 14 http://deb.debian.org/debian forky/main amd64 automake all 1:1.17-4 [862 kB] Get: 15 http://deb.debian.org/debian forky/main amd64 autopoint all 0.23.1-2 [770 kB] Get: 16 http://deb.debian.org/debian forky/main amd64 libdebhelper-perl all 13.26 [91.8 kB] Get: 17 http://deb.debian.org/debian forky/main amd64 libtool all 2.5.4-5 [540 kB] Get: 18 http://deb.debian.org/debian forky/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian forky/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian forky/main amd64 libfile-stripnondeterminism-perl all 1.14.2-1 [19.8 kB] Get: 21 http://deb.debian.org/debian forky/main amd64 dh-strip-nondeterminism all 1.14.2-1 [8768 B] Get: 22 http://deb.debian.org/debian forky/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 23 http://deb.debian.org/debian forky/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 24 http://deb.debian.org/debian forky/main amd64 libunistring5 amd64 1.3-2 [477 kB] Get: 25 http://deb.debian.org/debian forky/main amd64 libxml2-16 amd64 2.14.5+dfsg-0.2 [638 kB] Get: 26 http://deb.debian.org/debian forky/main amd64 gettext amd64 0.23.1-2+b1 [1680 kB] Get: 27 http://deb.debian.org/debian forky/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian forky/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian forky/main amd64 debhelper all 13.26 [939 kB] Get: 30 http://deb.debian.org/debian forky/main amd64 libgfortran5 amd64 15.2.0-2 [893 kB] Get: 31 http://deb.debian.org/debian forky/main amd64 libgfortran-14-dev amd64 14.3.0-5 [879 kB] Get: 32 http://deb.debian.org/debian forky/main amd64 gfortran-14-x86-64-linux-gnu amd64 14.3.0-5 [11.7 MB] Get: 33 http://deb.debian.org/debian forky/main amd64 gfortran-14 amd64 14.3.0-5 [15.2 kB] Get: 34 http://deb.debian.org/debian forky/main amd64 gfortran-x86-64-linux-gnu amd64 4:14.2.0-1 [1284 B] Get: 35 http://deb.debian.org/debian forky/main amd64 gfortran amd64 4:14.2.0-1 [1436 B] Fetched 24.7 MB in 1s (32.4 MB/s) Preconfiguring packages ... Selecting previously unselected package sensible-utils. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19897 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.26_all.deb ... Unpacking sensible-utils (0.0.26) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.46-5_amd64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../02-libmagic1t64_1%3a5.46-5_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.46-5) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.46-5_amd64.deb ... Unpacking file (1:5.46-5) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.23.1-2+b1_amd64.deb ... Unpacking gettext-base (0.23.1-2+b1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../05-libuchardet0_0.0.8-2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-2) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-9_amd64.deb ... Unpacking groff-base (1.23.0-9) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.41.1-1_amd64.deb ... Unpacking bsdextrautils (2.41.1-1) ... 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_2.13.1-1_amd64.deb ... Unpacking man-db (2.13.1-1) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.20-1_amd64.deb ... Unpacking m4 (1.4.20-1) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.72-3.1_all.deb ... Unpacking autoconf (2.72-3.1) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20240727.1_all.deb ... Unpacking autotools-dev (20240727.1) ... Selecting previously unselected package automake. Preparing to unpack .../13-automake_1%3a1.17-4_all.deb ... Unpacking automake (1:1.17-4) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_0.23.1-2_all.deb ... Unpacking autopoint (0.23.1-2) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.26_all.deb ... Unpacking libdebhelper-perl (13.26) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.5.4-5_all.deb ... Unpacking libtool (2.5.4-5) ... 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_1.14.2-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.2-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../20-dh-strip-nondeterminism_1.14.2-1_all.deb ... Unpacking dh-strip-nondeterminism (1.14.2-1) ... 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 libunistring5:amd64. Preparing to unpack .../23-libunistring5_1.3-2_amd64.deb ... Unpacking libunistring5:amd64 (1.3-2) ... Selecting previously unselected package libxml2-16:amd64. Preparing to unpack .../24-libxml2-16_2.14.5+dfsg-0.2_amd64.deb ... Unpacking libxml2-16:amd64 (2.14.5+dfsg-0.2) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_0.23.1-2+b1_amd64.deb ... Unpacking gettext (0.23.1-2+b1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../26-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../27-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../28-debhelper_13.26_all.deb ... Unpacking debhelper (13.26) ... Selecting previously unselected package libgfortran5:amd64. Preparing to unpack .../29-libgfortran5_15.2.0-2_amd64.deb ... Unpacking libgfortran5:amd64 (15.2.0-2) ... Selecting previously unselected package libgfortran-14-dev:amd64. Preparing to unpack .../30-libgfortran-14-dev_14.3.0-5_amd64.deb ... Unpacking libgfortran-14-dev:amd64 (14.3.0-5) ... Selecting previously unselected package gfortran-14-x86-64-linux-gnu. Preparing to unpack .../31-gfortran-14-x86-64-linux-gnu_14.3.0-5_amd64.deb ... Unpacking gfortran-14-x86-64-linux-gnu (14.3.0-5) ... Selecting previously unselected package gfortran-14. Preparing to unpack .../32-gfortran-14_14.3.0-5_amd64.deb ... Unpacking gfortran-14 (14.3.0-5) ... 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 bsdextrautils (2.41.1-1) ... Setting up libmagic-mgc (1:5.46-5) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libxml2-16:amd64 (2.14.5+dfsg-0.2) ... Setting up libdebhelper-perl (13.26) ... Setting up libmagic1t64:amd64 (1:5.46-5) ... Setting up gettext-base (0.23.1-2+b1) ... Setting up m4 (1.4.20-1) ... Setting up file (1:5.46-5) ... Setting up libelf1t64:amd64 (0.192-4) ... Setting up autotools-dev (20240727.1) ... Setting up libunistring5:amd64 (1.3-2) ... Setting up autopoint (0.23.1-2) ... Setting up libgfortran5:amd64 (15.2.0-2) ... Setting up autoconf (2.72-3.1) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.26) ... Setting up libuchardet0:amd64 (0.0.8-2) ... Setting up automake (1:1.17-4) ... update-alternatives: using /usr/bin/automake-1.17 to provide /usr/bin/automake (automake) in auto mode Setting up libgfortran-14-dev:amd64 (14.3.0-5) ... Setting up libfile-stripnondeterminism-perl (1.14.2-1) ... Setting up gettext (0.23.1-2+b1) ... Setting up libtool (2.5.4-5) ... Setting up gfortran-14-x86-64-linux-gnu (14.3.0-5) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.14.2-1) ... Setting up groff-base (1.23.0-9) ... Setting up gfortran-14 (14.3.0-5) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up 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 (13.26) ... Processing triggers for libc-bin (2.41-12) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/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/TMalign.1.dh-new debian/tm-align/usr/share/man/man1/TMalign.1 chmod 0644 -- debian/tm-align/usr/share/man/man1/TMalign.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 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/91 objcopy --only-keep-debug --compress-debug-sections debian/tm-align/usr/bin/TMalign debian/.debhelper/tm-align/dbgsym-root/usr/lib/debug/.build-id/91/82646341049dae8d0d9b0dc3988463eb973cd8.debug chmod 0644 -- debian/.debhelper/tm-align/dbgsym-root/usr/lib/debug/.build-id/91/82646341049dae8d0d9b0dc3988463eb973cd8.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/91/82646341049dae8d0d9b0dc3988463eb973cd8.debug debian/tm-align/usr/bin/TMalign install -m0755 -d debian/.debhelper/tm-align/dbgsym-root/usr/lib/debug/.build-id/52 objcopy --only-keep-debug --compress-debug-sections debian/tm-align/usr/bin/TMscore debian/.debhelper/tm-align/dbgsym-root/usr/lib/debug/.build-id/52/fa666427d5e2accb088e900cc53953f589a52e.debug chmod 0644 -- debian/.debhelper/tm-align/dbgsym-root/usr/lib/debug/.build-id/52/fa666427d5e2accb088e900cc53953f589a52e.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/52/fa666427d5e2accb088e900cc53953f589a52e.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=52fa666427d5e2accb088e900cc53953f589a52e 9182646341049dae8d0d9b0dc3988463eb973cd8" -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' in '../tm-align_20190822+dfsg-3_amd64.deb'. dpkg-deb: building package 'tm-align-dbgsym' in '../tm-align-dbgsym_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/555863 and its subdirectories I: Current time: Fri Sep 5 22:43:17 -12 2025 I: pbuilder-time-stamp: 1757155397 Sat Sep 6 10:43:18 UTC 2025 I: 1st build successful. Starting 2nd build on remote node infom02-amd64.debian.net. Sat Sep 6 10:43:18 UTC 2025 I: Preparing to do remote build '2' on infom02-amd64.debian.net. Sat Sep 6 10:44:11 UTC 2025 I: Deleting $TMPDIR on infom02-amd64.debian.net. Sat Sep 6 10:44:12 UTC 2025 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: 85db75369081040afe1239443d300eb7793a9a60 71096 tm-align-dbgsym_20190822+dfsg-3_amd64.deb 03fd568d5bfb2b4b6d835b1bb38faf7822fd601c 5162 tm-align_20190822+dfsg-3_amd64.buildinfo 8ab41a5736a0cc159f6b87da7d4b164b54b1ef22 866628 tm-align_20190822+dfsg-3_amd64.deb Checksums-Sha256: 336d609264544b58825440f941e1ecd0f3ae302ebf689788abd5902cc26188b6 71096 tm-align-dbgsym_20190822+dfsg-3_amd64.deb 3de8e01e8e1ebbae2afc48310b956c4896ea76e029aeb24ad39bc0edf5aff927 5162 tm-align_20190822+dfsg-3_amd64.buildinfo fbc2702318a5a762e316bbec4d7627ceb984cb78a09f06ad67b2393494e66865 866628 tm-align_20190822+dfsg-3_amd64.deb Files: ae5d123cda4f72032658fde97c769f8c 71096 debug optional tm-align-dbgsym_20190822+dfsg-3_amd64.deb 7a85507e34131bc821b8ad324ebb745a 5162 science optional tm-align_20190822+dfsg-3_amd64.buildinfo 31f269d6580aa71b086b97ce7434ec8d 866628 science optional tm-align_20190822+dfsg-3_amd64.deb Sat Sep 6 10:44:13 UTC 2025 I: diffoscope 305 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_35-76979.service; invocation ID: 48cd5b1de65e4a1789adbb5892fbaef1 # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.v7NTEGXP/tm-align_20190822+dfsg-3.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.v7NTEGXP/tm-align_20190822+dfsg-3.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.v7NTEGXP/tm-align_20190822+dfsg-3.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.v7NTEGXP/b1/tm-align_20190822+dfsg-3_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.v7NTEGXP/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 diffoscope.comparators.binary.FilesystemFile ## main (total time: 0.003s) 0.003s 2 calls outputs 0.000s 1 call cleanup Finished with result: success Main processes terminated with: code=exited, status=0/SUCCESS Service runtime: 203ms CPU time consumed: 171ms Memory peak: 17.8M (swap: 0B) Sat Sep 6 10:44:13 UTC 2025 I: diffoscope 305 found no differences in the changes files, and a .buildinfo file also exists. Sat Sep 6 10:44:13 UTC 2025 I: tm-align from forky built successfully and reproducibly on amd64. Sat Sep 6 10:44:14 UTC 2025 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'