Thu Mar 28 05:30:56 UTC 2024 I: starting to build probalign/trixie/i386 on jenkins on '2024-03-28 05:30' Thu Mar 28 05:30:56 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_6/17257/console.log Thu Mar 28 05:30:56 UTC 2024 I: Downloading source for trixie/probalign=1.4-10 --2024-03-28 05:30:56-- http://deb.debian.org/debian/pool/main/p/probalign/probalign_1.4-10.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 1971 (1.9K) [text/prs.lines.tag] Saving to: ‘probalign_1.4-10.dsc’ 0K . 100% 283M=0s 2024-03-28 05:30:56 (283 MB/s) - ‘probalign_1.4-10.dsc’ saved [1971/1971] Thu Mar 28 05:30:56 UTC 2024 I: probalign_1.4-10.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: probalign Binary: probalign Architecture: any Version: 1.4-10 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://web.njit.edu/~usman/probalign/ Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/probalign Vcs-Git: https://salsa.debian.org/med-team/probalign.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), help2man Package-List: probalign deb science optional arch=any Checksums-Sha1: b03b52e084da024780dfe051213c11e664592aeb 30060 probalign_1.4.orig.tar.gz a9bf04ea52818bfd737645c96f4235b813e15fad 4916 probalign_1.4-10.debian.tar.xz Checksums-Sha256: b221a27c5cbc3e5c707b0514c71301806074a2bf54047b57bd2d40497b663c29 30060 probalign_1.4.orig.tar.gz c28a26c9c36682e17dfd5da67b29058ba750b6d1dcb694003ee8cf52f141cfc3 4916 probalign_1.4-10.debian.tar.xz Files: 255d6ab775867a54d3727764b8dff561 30060 probalign_1.4.orig.tar.gz 37ad63fb22faa20345333dd9a2e6c6e6 4916 probalign_1.4-10.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmPJQxERHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtGh/w//d9nUAzZDMLKfSmVCj0MGGKCxs7AJiBYa 1r219oAiSyFT0vO+NlRu1bgMRdkrJ5K31KZP0riZQLhmwtdJCqet0ucvfaftaAzD SHeeigdFCijW7HMY7CjdVt8VW0jsV7TgonbGB9BPZjYr9gu/zZlmLnV6rL6IKGl/ QhXgVPP3akG11afV+yG+n4vb0hMd31sh/I1ZJz242DNhqYUHXsr2i1BBptTrji9i RMw/wMdrIBq2bU1Wilctum7Jk/FpxaqOWO93GhRQFyOaduO7ZS5zb6YSyQfUwIsy YIgW92NLd0+qGLzRyp8N8974a5wewydiMVQiyE5HFkT2OkOcf/pKeS0PML8F09p3 811Of+Pc/3YaVnn2EV8ypBJbKygyG94M9Oei9Msj9Wgr8c3OkagqEDCde27HCQAB DgUs8DktA9Zh9x3jysRLLMdFqM0cZu+BLNeDS8iCyD4KI9QqG39GbzEk1UfTF1z+ 50z40fIuPdLY+P+h+7Dl/kpvf0ynoFQYcpRSmerlk0U9tbUaRfeEYyvJ0AkId0dA sRa6RUUC3ElgqYnWCcbCUd+ukcSzhsEXIPAm+4PAZl4vGAaxbA812oAUrTuBSeNa /RbpPyho9Ly9Fe7LNheD54Mz0FUE1X4Nmxdwv+cDNL0dxN3LkxARneXO+CdnifvP lui2mPieYXA= =8del -----END PGP SIGNATURE----- Thu Mar 28 05:30:56 UTC 2024 I: Checking whether the package is not for us Thu Mar 28 05:30:56 UTC 2024 I: Starting 1st build on remote node ionos6-i386.debian.net. Thu Mar 28 05:30:56 UTC 2024 I: Preparing to do remote build '1' on ionos6-i386.debian.net. Thu Mar 28 05:31:33 UTC 2024 I: Deleting $TMPDIR on ionos6-i386.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Tue Apr 29 23:53:59 -12 2025 I: pbuilder-time-stamp: 1746014039 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: using eatmydata during job I: Copying source file I: copying [probalign_1.4-10.dsc] I: copying [./probalign_1.4.orig.tar.gz] I: copying [./probalign_1.4-10.debian.tar.xz] I: Extracting source gpgv: Signature made Thu Jan 19 13:18:09 2023 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 ./probalign_1.4-10.dsc: no acceptable signature found dpkg-source: info: extracting probalign in probalign-1.4 dpkg-source: info: unpacking probalign_1.4.orig.tar.gz dpkg-source: info: unpacking probalign_1.4-10.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying gcc_fixes.patch dpkg-source: info: applying fix-gcc-4.6.patch dpkg-source: info: applying hardening.patch dpkg-source: info: applying mayhem.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/126781/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='i386' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=22 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='20bef1e4dcbd49879dc1d67f0bd5bb65' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' LD_LIBRARY_PATH='/usr/lib/libeatmydata' LD_PRELOAD='libeatmydata.so' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='126781' 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.hAouJmxc/pbuilderrc_1SA9 --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.hAouJmxc/b1 --logfile b1/build.log probalign_1.4-10.dsc' SUDO_GID='112' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://85.184.249.68:3128' I: uname -a Linux ionos6-i386 6.1.0-18-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.76-1 (2024-02-01) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Apr 28 17:47 /bin -> usr/bin I: user script /srv/workspace/pbuilder/126781/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: i386 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), help2man dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19816 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on help2man; however: Package help2man is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} help2man{a} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1{a} libfile-stripnondeterminism-perl{a} libicu72{a} liblocale-gettext-perl{a} libmagic-mgc{a} libmagic1{a} libpipeline1{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 32 newly installed, 0 to remove and 0 not upgraded. Need to get 19.5 MB of archives. After unpacking 74.1 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main i386 liblocale-gettext-perl i386 1.07-6+b1 [15.3 kB] Get: 2 http://deb.debian.org/debian trixie/main i386 sensible-utils all 0.0.22 [22.4 kB] Get: 3 http://deb.debian.org/debian trixie/main i386 libmagic-mgc i386 1:5.45-2+b1 [314 kB] Get: 4 http://deb.debian.org/debian trixie/main i386 libmagic1 i386 1:5.45-2+b1 [114 kB] Get: 5 http://deb.debian.org/debian trixie/main i386 file i386 1:5.45-2+b1 [43.0 kB] Get: 6 http://deb.debian.org/debian trixie/main i386 gettext-base i386 0.21-14+b1 [162 kB] Get: 7 http://deb.debian.org/debian trixie/main i386 libuchardet0 i386 0.0.8-1+b1 [69.1 kB] Get: 8 http://deb.debian.org/debian trixie/main i386 groff-base i386 1.23.0-3 [1195 kB] Get: 9 http://deb.debian.org/debian trixie/main i386 bsdextrautils i386 2.39.3-6 [93.3 kB] Get: 10 http://deb.debian.org/debian trixie/main i386 libpipeline1 i386 1.5.7-1+b2 [39.6 kB] Get: 11 http://deb.debian.org/debian trixie/main i386 man-db i386 2.12.0-3 [1413 kB] Get: 12 http://deb.debian.org/debian trixie/main i386 m4 i386 1.4.19-4 [293 kB] Get: 13 http://deb.debian.org/debian trixie/main i386 autoconf all 2.71-3 [332 kB] Get: 14 http://deb.debian.org/debian trixie/main i386 autotools-dev all 20220109.1 [51.6 kB] Get: 15 http://deb.debian.org/debian trixie/main i386 automake all 1:1.16.5-1.3 [823 kB] Get: 16 http://deb.debian.org/debian trixie/main i386 autopoint all 0.21-14 [496 kB] Get: 17 http://deb.debian.org/debian trixie/main i386 libdebhelper-perl all 13.14.1 [85.6 kB] Get: 18 http://deb.debian.org/debian trixie/main i386 libtool all 2.4.7-7 [517 kB] Get: 19 http://deb.debian.org/debian trixie/main i386 dh-autoreconf all 20 [17.1 kB] Get: 20 http://deb.debian.org/debian trixie/main i386 libarchive-zip-perl all 1.68-1 [104 kB] Get: 21 http://deb.debian.org/debian trixie/main i386 libsub-override-perl all 0.10-1 [10.6 kB] Get: 22 http://deb.debian.org/debian trixie/main i386 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB] Get: 23 http://deb.debian.org/debian trixie/main i386 dh-strip-nondeterminism all 1.13.1-1 [8620 B] Get: 24 http://deb.debian.org/debian trixie/main i386 libelf1 i386 0.190-1+b1 [182 kB] Get: 25 http://deb.debian.org/debian trixie/main i386 dwz i386 0.15-1 [118 kB] Get: 26 http://deb.debian.org/debian trixie/main i386 libicu72 i386 72.1-4+b1 [9549 kB] Get: 27 http://deb.debian.org/debian trixie/main i386 libxml2 i386 2.9.14+dfsg-1.3+b2 [727 kB] Get: 28 http://deb.debian.org/debian trixie/main i386 gettext i386 0.21-14+b1 [1311 kB] Get: 29 http://deb.debian.org/debian trixie/main i386 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 30 http://deb.debian.org/debian trixie/main i386 po-debconf all 1.0.21+nmu1 [248 kB] Get: 31 http://deb.debian.org/debian trixie/main i386 debhelper all 13.14.1 [890 kB] Get: 32 http://deb.debian.org/debian trixie/main i386 help2man i386 1.49.3 [198 kB] Fetched 19.5 MB in 1s (18.9 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package liblocale-gettext-perl. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19816 files and directories currently installed.) Preparing to unpack .../00-liblocale-gettext-perl_1.07-6+b1_i386.deb ... Unpacking liblocale-gettext-perl (1.07-6+b1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../01-sensible-utils_0.0.22_all.deb ... Unpacking sensible-utils (0.0.22) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../02-libmagic-mgc_1%3a5.45-2+b1_i386.deb ... Unpacking libmagic-mgc (1:5.45-2+b1) ... Selecting previously unselected package libmagic1:i386. Preparing to unpack .../03-libmagic1_1%3a5.45-2+b1_i386.deb ... Unpacking libmagic1:i386 (1:5.45-2+b1) ... Selecting previously unselected package file. Preparing to unpack .../04-file_1%3a5.45-2+b1_i386.deb ... Unpacking file (1:5.45-2+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../05-gettext-base_0.21-14+b1_i386.deb ... Unpacking gettext-base (0.21-14+b1) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../06-libuchardet0_0.0.8-1+b1_i386.deb ... Unpacking libuchardet0:i386 (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../07-groff-base_1.23.0-3_i386.deb ... Unpacking groff-base (1.23.0-3) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../08-bsdextrautils_2.39.3-6_i386.deb ... Unpacking bsdextrautils (2.39.3-6) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../09-libpipeline1_1.5.7-1+b2_i386.deb ... Unpacking libpipeline1:i386 (1.5.7-1+b2) ... Selecting previously unselected package man-db. Preparing to unpack .../10-man-db_2.12.0-3_i386.deb ... Unpacking man-db (2.12.0-3) ... Selecting previously unselected package m4. Preparing to unpack .../11-m4_1.4.19-4_i386.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../12-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../13-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../14-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../15-autopoint_0.21-14_all.deb ... Unpacking autopoint (0.21-14) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../16-libdebhelper-perl_13.14.1_all.deb ... Unpacking libdebhelper-perl (13.14.1) ... Selecting previously unselected package libtool. Preparing to unpack .../17-libtool_2.4.7-7_all.deb ... Unpacking libtool (2.4.7-7) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../18-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../19-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../20-libsub-override-perl_0.10-1_all.deb ... Unpacking libsub-override-perl (0.10-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../21-libfile-stripnondeterminism-perl_1.13.1-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.13.1-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../22-dh-strip-nondeterminism_1.13.1-1_all.deb ... Unpacking dh-strip-nondeterminism (1.13.1-1) ... Selecting previously unselected package libelf1:i386. Preparing to unpack .../23-libelf1_0.190-1+b1_i386.deb ... Unpacking libelf1:i386 (0.190-1+b1) ... Selecting previously unselected package dwz. Preparing to unpack .../24-dwz_0.15-1_i386.deb ... Unpacking dwz (0.15-1) ... Selecting previously unselected package libicu72:i386. Preparing to unpack .../25-libicu72_72.1-4+b1_i386.deb ... Unpacking libicu72:i386 (72.1-4+b1) ... Selecting previously unselected package libxml2:i386. Preparing to unpack .../26-libxml2_2.9.14+dfsg-1.3+b2_i386.deb ... Unpacking libxml2:i386 (2.9.14+dfsg-1.3+b2) ... Selecting previously unselected package gettext. Preparing to unpack .../27-gettext_0.21-14+b1_i386.deb ... Unpacking gettext (0.21-14+b1) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../28-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../29-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../30-debhelper_13.14.1_all.deb ... Unpacking debhelper (13.14.1) ... Selecting previously unselected package help2man. Preparing to unpack .../31-help2man_1.49.3_i386.deb ... Unpacking help2man (1.49.3) ... Setting up libpipeline1:i386 (1.5.7-1+b2) ... Setting up libicu72:i386 (72.1-4+b1) ... Setting up bsdextrautils (2.39.3-6) ... Setting up libmagic-mgc (1:5.45-2+b1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.14.1) ... Setting up libmagic1:i386 (1:5.45-2+b1) ... Setting up gettext-base (0.21-14+b1) ... Setting up m4 (1.4.19-4) ... Setting up file (1:5.45-2+b1) ... Setting up autotools-dev (20220109.1) ... Setting up autopoint (0.21-14) ... Setting up autoconf (2.71-3) ... Setting up sensible-utils (0.0.22) ... Setting up libuchardet0:i386 (0.0.8-1+b1) ... Setting up libsub-override-perl (0.10-1) ... Setting up libelf1:i386 (0.190-1+b1) ... Setting up libxml2:i386 (2.9.14+dfsg-1.3+b2) ... Setting up liblocale-gettext-perl (1.07-6+b1) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up gettext (0.21-14+b1) ... Setting up libtool (2.4.7-7) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up help2man (1.49.3) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up dwz (0.15-1) ... Setting up groff-base (1.23.0-3) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.12.0-3) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.14.1) ... Processing triggers for libc-bin (2.37-15) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/probalign-1.4/ && 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 > ../probalign_1.4-10_source.changes dpkg-buildpackage: info: source package probalign dpkg-buildpackage: info: source version 1.4-10 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 debian/rules clean dh clean dh_auto_clean make -j22 clean make[1]: Entering directory '/build/reproducible-path/probalign-1.4' rm -f probalign make[1]: Leaving directory '/build/reproducible-path/probalign-1.4' dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure dh_auto_build make -j22 "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/probalign-1.4' g++ -g -O2 -ffile-prefix-map=/build/reproducible-path/probalign-1.4=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -W -Wall -funroll-loops -lm -o probalign Main.cc PostProbs.cc ComputeAlignment.cc ReadMatrix.cc -Wl,-z,relro -Wl,-z,now In file included from MultiSequence.h:18, from Main.cc:9: Sequence.h: In member function 'Sequence* Sequence::Clone() const': Sequence.h:293:21: warning: implicitly-declared 'SafeVector& SafeVector::operator=(const SafeVector&)' is deprecated [-Wdeprecated-copy] 293 | *(ret->data) = *data; | ^~~~ In file included from Main.cc:8: SafeVector.h:29:3: note: because 'SafeVector' has user-provided 'SafeVector::SafeVector(const SafeVector&) [with TYPE = char]' 29 | SafeVector (const SafeVector &source) : std::vector(source) {} | ^~~~~~~~~~ PostProbs.cc: In function 'VF* revers_partf(long double**, float, float, float)': PostProbs.cc:312:17: warning: variable 'zz' set but not used [-Wunused-but-set-variable] 312 | long double zz = 0; | ^~ PostProbs.cc: In function 'VF* ComputePostProbs(int, int, std::string, std::string)': PostProbs.cc:892:9: warning: variable 'stock_loop' set but not used [-Wunused-but-set-variable] 892 | int stock_loop = 1; | ^~~~~~~~~~ PostProbs.cc: In function 'VF* revers_partf(long double**, float, float, float)': PostProbs.cc:508:18: warning: 'void operator delete(void*, std::size_t)' called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete] 508 | delete(Zf); | ^ PostProbs.cc:180:33: note: returned from 'void* operator new [](std::size_t)' 180 | Zf = new long double *[2]; | ^ PostProbs.cc:511:18: warning: 'void operator delete(void*, std::size_t)' called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete] 511 | delete(Ze); | ^ PostProbs.cc:179:33: note: returned from 'void* operator new [](std::size_t)' 179 | Ze = new long double *[2]; | ^ PostProbs.cc:515:18: warning: 'void operator delete(void*, std::size_t)' called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete] 515 | delete(Zm); | ^ PostProbs.cc:178:33: note: returned from 'void* operator new [](std::size_t)' 178 | Zm = new long double *[2]; | ^ PostProbs.cc: In function 'long double** partf(float, float, float)': PostProbs.cc:871:21: warning: 'void operator delete(void*, std::size_t)' called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete] 871 | delete(Zf[0]); | ^ PostProbs.cc:590:56: note: returned from 'void* operator new [](std::size_t)' 590 | Zf[0] = new long double[sequences[0].length + 1]; | ^ PostProbs.cc:872:21: warning: 'void operator delete(void*, std::size_t)' called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete] 872 | delete(Ze[0]); | ^ PostProbs.cc:589:56: note: returned from 'void* operator new [](std::size_t)' 589 | Ze[0] = new long double[sequences[0].length + 1]; | ^ PostProbs.cc:873:21: warning: 'void operator delete(void*, std::size_t)' called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete] 873 | delete(Zf[1]); | ^ PostProbs.cc:592:56: note: returned from 'void* operator new [](std::size_t)' 592 | Zf[1] = new long double[sequences[0].length + 1]; | ^ PostProbs.cc:874:21: warning: 'void operator delete(void*, std::size_t)' called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete] 874 | delete(Ze[1]); | ^ PostProbs.cc:591:56: note: returned from 'void* operator new [](std::size_t)' 591 | Ze[1] = new long double[sequences[0].length + 1]; | ^ PostProbs.cc:877:14: warning: 'void operator delete(void*, std::size_t)' called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete] 877 | delete(Zf); | ^ PostProbs.cc:584:33: note: returned from 'void* operator new [](std::size_t)' 584 | Zf = new long double *[2]; | ^ PostProbs.cc:878:14: warning: 'void operator delete(void*, std::size_t)' called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete] 878 | delete(Ze); | ^ PostProbs.cc:583:33: note: returned from 'void* operator new [](std::size_t)' 583 | Ze = new long double *[2]; | ^ In file included from MultiSequence.h:18, from ComputeAlignment.cc:12: Sequence.h: In member function 'Sequence* Sequence::Clone() const': Sequence.h:293:21: warning: implicitly-declared 'SafeVector& SafeVector::operator=(const SafeVector&)' is deprecated [-Wdeprecated-copy] 293 | *(ret->data) = *data; | ^~~~ In file included from ComputeAlignment.cc:10: SafeVector.h:29:3: note: because 'SafeVector' has user-provided 'SafeVector::SafeVector(const SafeVector&) [with TYPE = char]' 29 | SafeVector (const SafeVector &source) : std::vector(source) {} | ^~~~~~~~~~ ReadMatrix.cc: In function 'void read_matrix(score_matrix)': ReadMatrix.cc:100:10: warning: storing the address of local variable 'matrx' in 'bases' [-Wdangling-pointer=] 100 | bases=(char *)matrx.monomers; | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ ReadMatrix.cc:96:38: note: 'matrx' declared here 96 | inline void read_matrix(score_matrix matrx) | ~~~~~~~~~~~~~^~~~~ ReadMatrix.cc:19:23: note: 'bases' declared here 19 | extern char *aminos, *bases, matrixtype[20]; | ^~~~~ make[1]: Leaving directory '/build/reproducible-path/probalign-1.4' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_installdirs debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/probalign-1.4' help2man --name="Align sequences in MFAFILE(s) and print result to standard output" \ --no-discard-stderr \ --version-string=1.4 \ --help-option=" " \ --no-info \ /build/reproducible-path/probalign-1.4/probalign > /build/reproducible-path/probalign-1.4/debian/probalign/usr/share/man/man1/probalign.1 make[1]: Leaving directory '/build/reproducible-path/probalign-1.4' dh_install dh_installdocs dh_installchangelogs dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'probalign' in '../probalign_1.4-10_i386.deb'. dpkg-deb: building package 'probalign-dbgsym' in '../probalign-dbgsym_1.4-10_i386.deb'. dpkg-genbuildinfo --build=binary -O../probalign_1.4-10_i386.buildinfo dpkg-genchanges --build=binary -O../probalign_1.4-10_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/126781 and its subdirectories I: Current time: Tue Apr 29 23:54:32 -12 2025 I: pbuilder-time-stamp: 1746014072 Thu Mar 28 05:31:34 UTC 2024 I: 1st build successful. Starting 2nd build on remote node ionos12-i386.debian.net. Thu Mar 28 05:31:34 UTC 2024 I: Preparing to do remote build '2' on ionos12-i386.debian.net. Thu Mar 28 05:32:59 UTC 2024 I: Deleting $TMPDIR on ionos12-i386.debian.net. Thu Mar 28 05:33:00 UTC 2024 I: probalign_1.4-10_i386.changes: Format: 1.8 Date: Thu, 19 Jan 2023 14:15:16 +0100 Source: probalign Binary: probalign probalign-dbgsym Architecture: i386 Version: 1.4-10 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: probalign - multiple sequence alignment using partition function posterior pr Changes: probalign (1.4-10) unstable; urgency=medium . * Fix Homepage and download location * Standards-Version: 4.6.2 (routine-update) Checksums-Sha1: 588c70599ae5440c8f5c871e893933ecd4fe2542 545836 probalign-dbgsym_1.4-10_i386.deb a5a5827f30d90205a530ce61e6ed6bb3af2d4995 5429 probalign_1.4-10_i386.buildinfo b41cd45c8ff8a1c1e26b15ec681b71ae657af10f 63456 probalign_1.4-10_i386.deb Checksums-Sha256: b11be827b8b6abff45fba51c0e9a9b3153aafece05ba76ea5b821f075b3ae44f 545836 probalign-dbgsym_1.4-10_i386.deb 191ff22ef94726b11e8490d37f98e4cb9958647558120d60f631ad6d55a8c7bb 5429 probalign_1.4-10_i386.buildinfo 6eb53389bf04a24847961b0e02aeaec1160112943289bac87d6e4261f9334dcd 63456 probalign_1.4-10_i386.deb Files: d85605cabc075760b068160b5ae185af 545836 debug optional probalign-dbgsym_1.4-10_i386.deb 6129a43c81588b02f5727775d79d894d 5429 science optional probalign_1.4-10_i386.buildinfo df5c8249e6963a51df3183ac6a6da523 63456 science optional probalign_1.4-10_i386.deb Thu Mar 28 05:33:01 UTC 2024 I: diffoscope 261 will be used to compare the two builds: Running as unit: rb-diffoscope-i386_6-17257.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.hAouJmxc/probalign_1.4-10.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.hAouJmxc/probalign_1.4-10.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.hAouJmxc/probalign_1.4-10.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.hAouJmxc/b1/probalign_1.4-10_i386.changes /srv/reproducible-results/rbuild-debian/r-b-build.hAouJmxc/b2/probalign_1.4-10_i386.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.321s) 0.321s 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: 610ms CPU time consumed: 611ms Thu Mar 28 05:33:02 UTC 2024 I: diffoscope 261 found no differences in the changes files, and a .buildinfo file also exists. Thu Mar 28 05:33:02 UTC 2024 I: probalign from trixie built successfully and reproducibly on i386. Thu Mar 28 05:33:03 UTC 2024 I: Submitting .buildinfo files to external archives: Thu Mar 28 05:33:03 UTC 2024 I: Submitting 8.0K b1/probalign_1.4-10_i386.buildinfo.asc Thu Mar 28 05:33:05 UTC 2024 I: Submitting 8.0K b2/probalign_1.4-10_i386.buildinfo.asc Thu Mar 28 05:33:06 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Thu Mar 28 05:33:06 UTC 2024 I: Done submitting .buildinfo files. Thu Mar 28 05:33:06 UTC 2024 I: Removing signed probalign_1.4-10_i386.buildinfo.asc files: removed './b1/probalign_1.4-10_i386.buildinfo.asc' removed './b2/probalign_1.4-10_i386.buildinfo.asc'