Running as unit: rb-build-amd64_15-67866.service ==================================================================================== Wed Aug 6 08:12:09 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job reproducible_builder_amd64_15) on jenkins, called using "ionos11-amd64 ionos15-amd64" as arguments. Wed Aug 6 08:12:09 UTC 2025 - actually running "reproducible_build.sh" (md5sum 44ec6a3142940d5e9a7ab76543d96029) as "/tmp/jenkins-script-tPJc05y0" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Wed Aug 6 08:12:09 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos11-amd64.debian.net is marked as down. Wed Aug 6 08:12:09 UTC 2025 - checking via ssh if ionos11-amd64.debian.net is up. removed '/tmp/read-only-fs-test-kyI4Yx' Wed Aug 6 08:12:09 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos15-amd64.debian.net is marked as down. Wed Aug 6 08:12:09 UTC 2025 - checking via ssh if ionos15-amd64.debian.net is up. removed '/tmp/read-only-fs-test-h0GeeK' ok, let's check if probcons is building anywhere yet… ok, probcons is not building anywhere… UPDATE 1 ============================================================================= Initialising reproducibly build of probcons in unstable on amd64 on jenkins now. 1st build will be done on ionos11-amd64.debian.net. 2nd build will be done on ionos15-amd64.debian.net. ============================================================================= Wed Aug 6 08:12:29 UTC 2025 I: starting to build probcons/unstable/amd64 on jenkins on '2025-08-06 08:12' Wed Aug 6 08:12:29 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_15/67866/console.log 1754467949 amd64 unstable probcons Wed Aug 6 08:12:29 UTC 2025 I: Downloading source for unstable/probcons=1.12-14 --2025-08-06 08:12:30-- http://deb.debian.org/debian/pool/main/p/probcons/probcons_1.12-14.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2049 (2.0K) [text/prs.lines.tag] Saving to: ‘probcons_1.12-14.dsc’ 0K .. 100% 248M=0s 2025-08-06 08:12:30 (248 MB/s) - ‘probcons_1.12-14.dsc’ saved [2049/2049] --2025-08-06 08:12:30-- http://deb.debian.org/debian/pool/main/p/probcons/probcons_1.12-14.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2049 (2.0K) [text/prs.lines.tag] Saving to: ‘probcons_1.12-14.dsc’ 0K .. 100% 248M=0s 2025-08-06 08:12:30 (248 MB/s) - ‘probcons_1.12-14.dsc’ saved [2049/2049] Wed Aug 6 08:12:30 UTC 2025 I: probcons_1.12-14.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: probcons Binary: probcons, probcons-extra Architecture: any Version: 1.12-14 Maintainer: Debian Med Packaging Team Uploaders: Charles Plessy , Andreas Tille Homepage: http://probcons.stanford.edu/ Standards-Version: 4.6.0 Vcs-Browser: https://salsa.debian.org/med-team/probcons Vcs-Git: https://salsa.debian.org/med-team/probcons.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13) Package-List: probcons deb science optional arch=any probcons-extra deb science optional arch=any Checksums-Sha1: ee6ce81777c9ce366f575ab4096ff07f39af9829 43200 probcons_1.12.orig.tar.gz 07968801e65b5f82622bbd32fb20c4c750d95689 13236 probcons_1.12-14.debian.tar.xz Checksums-Sha256: ecf3f9ab9ad47e14787c76d1c64aeea5533d4038c4be0236c00cdd79104cf383 43200 probcons_1.12.orig.tar.gz 1b2bc5be50ed89589074a47eb107b2f339bad83ef8fccbf9ab2959e754bb2fe9 13236 probcons_1.12-14.debian.tar.xz Files: a658e24b07aaa9e8194317345133ac9d 43200 probcons_1.12.orig.tar.gz ef21598c91ea670f7725728a7ee29c86 13236 probcons_1.12-14.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmEnVBsRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtF2BxAAhAhVjXFOIReqExzDERNoIAutuviXoXa7 Fz61vADED/5xOqYexCq6vUgrsp2NK5JkzH4KLxVUN8x6KFbD4OfgLxd9XWr/Naut cvJoFPfyDJh6mSIIF33qFNy1Bv4+WV4SLQFx3KplmqkHYdYtXffAOotM5pkwMWs1 C316vaw2PgbNTc5snaeYxlTs1JFADkk4qpIVK9cBqeiJiU1f9PFLKKz8QFV+QNPB rf7rbrWRZm4F/KEmMW3DrehiPTI5kOiXuv3zjAjUAd4xa7sO2QzfdGC2pYtLpJCl j9cMKNivUiZPOOGlzZnXxme25cKJK5TsLc2Qck1PH4j5X5h8IWQCJmZV5oW15S5r oHimHJ9n2SvjaCVgFonaRpyAFdHxiWobt8iwC5QCc8CtuqlS4inJV6D7RNx7oDxF QiBWrcpwgvtynEAQxhVstBhygbefW8ZyAq765YOyOO+XmEACDBl0Ci/YWJMGbLIz hlG+wjnKEaB0fAhmtb5ysdtepaVN/xl0jytn4WGOgHxwUy9R2dYvNXNeknkJ5D5N 6bbXwrT2FHLCzMJD9p0Nozu/nI1oluFtkf8NaSBAOx1iyby6nD1uqZtC62zJGnc2 wEnkvzGovSr64+eQ+nS97mvRVOGK4cBFT/ark/DU457NY3E75h4q0JuHTOdcdb70 gHPDk20zDCs= =xEjt -----END PGP SIGNATURE----- Wed Aug 6 08:12:30 UTC 2025 I: Checking whether the package is not for us Wed Aug 6 08:12:30 UTC 2025 I: Starting 1st build on remote node ionos11-amd64.debian.net. Wed Aug 6 08:12:30 UTC 2025 I: Preparing to do remote build '1' on ionos11-amd64.debian.net. Wed Aug 6 08:12:30 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos11-amd64.debian.net is marked as down. Wed Aug 6 08:12:30 UTC 2025 - checking via ssh if ionos11-amd64.debian.net is up. removed '/tmp/read-only-fs-test-UXHwmV' ==================================================================================== Wed Aug 6 08:12:30 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on ionos11-amd64, called using "1 probcons unstable /srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT 1.12-14" as arguments. Wed Aug 6 08:12:30 UTC 2025 - actually running "reproducible_build.sh" (md5sum 44ec6a3142940d5e9a7ab76543d96029) as "/tmp/jenkins-script-hfnncWel" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Wed Aug 6 08:12:30 UTC 2025 I: Downloading source for unstable/probcons=1.12-14 Reading package lists... NOTICE: 'probcons' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/probcons.git Please use: git clone https://salsa.debian.org/med-team/probcons.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 58.5 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main probcons 1.12-14 (dsc) [2049 B] Get:2 http://deb.debian.org/debian unstable/main probcons 1.12-14 (tar) [43.2 kB] Get:3 http://deb.debian.org/debian unstable/main probcons 1.12-14 (diff) [13.2 kB] Fetched 58.5 kB in 0s (2299 kB/s) Download complete and in download only mode Reading package lists... NOTICE: 'probcons' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/probcons.git Please use: git clone https://salsa.debian.org/med-team/probcons.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 58.5 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main probcons 1.12-14 (dsc) [2049 B] Get:2 http://deb.debian.org/debian unstable/main probcons 1.12-14 (tar) [43.2 kB] Get:3 http://deb.debian.org/debian unstable/main probcons 1.12-14 (diff) [13.2 kB] Fetched 58.5 kB in 0s (2299 kB/s) Download complete and in download only mode ============================================================================= Building probcons in unstable on amd64 on ionos11-amd64 now. Date: Wed Aug 6 08:12:31 UTC 2025 Date UTC: Wed Aug 6 08:12:31 UTC 2025 ============================================================================= W: /root/.pbuilderrc does not exist I: Logging to b1/build.log I: pbuilder: network access will be disabled during build I: Current time: Tue Aug 5 20:12:31 -12 2025 I: pbuilder-time-stamp: 1754467951 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [probcons_1.12-14.dsc] I: copying [./probcons_1.12.orig.tar.gz] I: copying [./probcons_1.12-14.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./probcons_1.12-14.dsc: no acceptable signature found dpkg-source: info: extracting probcons in probcons-1.12 dpkg-source: info: unpacking probcons_1.12.orig.tar.gz dpkg-source: info: unpacking probcons_1.12-14.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying 10_add-RNA-in-Makefile.patch dpkg-source: info: applying 11-Rename-programs-in-Makefile.patch dpkg-source: info: applying fix-gcc-4.5-headers 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/1733877/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=40 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='4d94ac26e76847e8b9cf95eafe64c9f5' 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='1733877' 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.adYF5aPT/pbuilderrc_smNp --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT/b1 --logfile b1/build.log probcons_1.12-14.dsc' SUDO_GID='111' SUDO_UID='106' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://46.16.76.132:3128' I: uname -a Linux ionos11-amd64 6.1.0-37-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.140-1 (2025-05-22) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 May 12 19:25 /bin -> usr/bin I: user script /srv/workspace/pbuilder/1733877/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) dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19850 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libtool{a} libuchardet0{a} libunistring5{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 29 newly installed, 0 to remove and 0 not upgraded. Need to get 11.2 MB of archives. After unpacking 42.7 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.25 [25.0 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.46-5 [338 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.46-5 [109 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.46-5 [43.6 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.23.1-2 [243 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-9 [1187 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.41-5 [94.6 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.1-1 [1469 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-8 [294 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3.1 [494 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20240727.1 [60.2 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.17-4 [862 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.23.1-2 [770 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.24.2 [90.9 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 libtool all 2.5.4-4 [539 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 22 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 libunistring5 amd64 1.3-2 [477 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-2.1 [698 kB] Get: 26 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.23.1-2 [1680 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.24.2 [919 kB] Fetched 11.2 MB in 0s (45.6 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 ... 19850 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.25_all.deb ... Unpacking sensible-utils (0.0.25) ... 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_amd64.deb ... Unpacking gettext-base (0.23.1-2) ... 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_1.23.0-9_amd64.deb ... Unpacking groff-base (1.23.0-9) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.41-5_amd64.deb ... Unpacking bsdextrautils (2.41-5) ... 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_1.4.19-8_amd64.deb ... Unpacking m4 (1.4.19-8) ... 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_13.24.2_all.deb ... Unpacking libdebhelper-perl (13.24.2) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.5.4-4_all.deb ... Unpacking libtool (2.5.4-4) ... 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_1.14.1-2_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.1-2) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../20-dh-strip-nondeterminism_1.14.1-2_all.deb ... Unpacking dh-strip-nondeterminism (1.14.1-2) ... 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:amd64. Preparing to unpack .../24-libxml2_2.12.7+dfsg+really2.9.14-2.1_amd64.deb ... Unpacking libxml2:amd64 (2.12.7+dfsg+really2.9.14-2.1) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_0.23.1-2_amd64.deb ... Unpacking gettext (0.23.1-2) ... 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_13.24.2_all.deb ... Unpacking debhelper (13.24.2) ... Setting up libpipeline1:amd64 (1.5.8-1) ... Setting up bsdextrautils (2.41-5) ... Setting up libmagic-mgc (1:5.46-5) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.24.2) ... Setting up libmagic1t64:amd64 (1:5.46-5) ... Setting up gettext-base (0.23.1-2) ... Setting up m4 (1.4.19-8) ... 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 autoconf (2.72-3.1) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.25) ... Setting up libuchardet0:amd64 (0.0.8-1+b2) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-2.1) ... 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 libfile-stripnondeterminism-perl (1.14.1-2) ... Setting up gettext (0.23.1-2) ... Setting up libtool (2.5.4-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.14.1-2) ... Setting up groff-base (1.23.0-9) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.24.2) ... 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/probcons-1.12/ && 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 > ../probcons_1.12-14_source.changes dpkg-buildpackage: info: source package probcons dpkg-buildpackage: info: source version 1.12-14 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 dh_auto_clean make -j40 clean make[1]: Entering directory '/build/reproducible-path/probcons-1.12' rm -f probcons probcons-RNA pc-compare pc-project pc-makegnuplot make[1]: Leaving directory '/build/reproducible-path/probcons-1.12' debian/rules override_dh_clean make[1]: Entering directory '/build/reproducible-path/probcons-1.12' dh_clean probcons probcons-RNA pc-project pc-compare pc-makegnuplot Main-RNA.cc Defaults-RNA.h make[1]: Leaving directory '/build/reproducible-path/probcons-1.12' debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/probcons-1.12' cp Main.cc Main-RNA.cc sed -i s/Defaults.h/Defaults-RNA.h/ Main-RNA.cc cp debian/Defaults-RNA.h Defaults-RNA.h dh_auto_build make -j40 "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/reproducible-path/probcons-1.12' g++ -O3 -W -Wall -pedantic -DNDEBUG -DNumInsertStates=2 -DVERSION="1.12" -funroll-loops -g -O2 -ffile-prefix-map=/build/reproducible-path/probcons-1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -lm -o probcons Main.cc -Wl,-z,relro -Wl,-z,now g++ -O3 -W -Wall -pedantic -DNDEBUG -DNumInsertStates=1 -DVERSION="1.12" -funroll-loops -g -O2 -ffile-prefix-map=/build/reproducible-path/probcons-1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -lm -o probcons-RNA Main-RNA.cc -Wl,-z,relro -Wl,-z,now g++ -O3 -W -Wall -pedantic -DNDEBUG -DNumInsertStates=2 -DVERSION="1.12" -funroll-loops -g -O2 -ffile-prefix-map=/build/reproducible-path/probcons-1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -o pc-compare CompareToRef.cc -Wl,-z,relro -Wl,-z,now g++ -O3 -W -Wall -pedantic -DNDEBUG -DNumInsertStates=2 -DVERSION="1.12" -funroll-loops -g -O2 -ffile-prefix-map=/build/reproducible-path/probcons-1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -o pc-project ProjectPairwise.cc -Wl,-z,relro -Wl,-z,now g++ -O3 -W -Wall -pedantic -DNDEBUG -DNumInsertStates=2 -DVERSION="1.12" -funroll-loops -g -O2 -ffile-prefix-map=/build/reproducible-path/probcons-1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -o pc-makegnuplot MakeGnuPlot.cc -Wl,-z,relro -Wl,-z,now In file included from MultiSequence.h:18, from CompareToRef.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 CompareToRef.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) {} | ^~~~~~~~~~ In file included from MultiSequence.h:18, from Main-RNA.cc:8: 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-RNA.cc:7: 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) {} | ^~~~~~~~~~ In file included from MultiSequence.h:18, from ProjectPairwise.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 ProjectPairwise.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) {} | ^~~~~~~~~~ In file included from MultiSequence.h:18, from Main.cc:8: 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:7: 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) {} | ^~~~~~~~~~ In file included from Main-RNA.cc:11: ProbabilisticModel.h: In member function 'void ProbabilisticModel::ComputeNewParameters(Sequence*, Sequence*, const VF&, const VF&, VF&, VF&, VF&, VVF&, VF&, bool) const': ProbabilisticModel.h:493:38: warning: suggest parentheses around '&&' within '||' [-Wparentheses] 493 | if (enableTrainEmissions && i != 1 || j != 1){ | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ ProbabilisticModel.h: In member function 'VF* ProbabilisticModel::BuildPosterior(MultiSequence*, MultiSequence*, const SafeVector >&, float) const': ProbabilisticModel.h:1027:18: warning: variable 'postPtr' set but not used [-Wunused-but-set-variable] 1027 | VF::iterator postPtr = posterior.begin(); | ^~~~~~~ In file included from Main.cc:11: ProbabilisticModel.h: In member function 'void ProbabilisticModel::ComputeNewParameters(Sequence*, Sequence*, const VF&, const VF&, VF&, VF&, VF&, VVF&, VF&, bool) const': ProbabilisticModel.h:493:38: warning: suggest parentheses around '&&' within '||' [-Wparentheses] 493 | if (enableTrainEmissions && i != 1 || j != 1){ | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ ProbabilisticModel.h: In member function 'VF* ProbabilisticModel::BuildPosterior(MultiSequence*, MultiSequence*, const SafeVector >&, float) const': ProbabilisticModel.h:1027:18: warning: variable 'postPtr' set but not used [-Wunused-but-set-variable] 1027 | VF::iterator postPtr = posterior.begin(); | ^~~~~~~ Main-RNA.cc: In function 'void PrintParameters(const char*, const VF&, const VF&, const VF&, const VVF&, const VF&, const char*)': Main-RNA.cc:282:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] 282 | for (int i = 0; i < NumMatrixTypes; i++) fprintf (file, "%.10f ", initDistrib[i]); fprintf (file, "\n"); | ^~~ Main-RNA.cc:282:88: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' 282 | for (int i = 0; i < NumMatrixTypes; i++) fprintf (file, "%.10f ", initDistrib[i]); fprintf (file, "\n"); | ^~~~~~~ Main-RNA.cc:283:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] 283 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapOpen[i]); fprintf (file, "\n"); | ^~~ Main-RNA.cc:283:87: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' 283 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapOpen[i]); fprintf (file, "\n"); | ^~~~~~~ Main-RNA.cc:284:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] 284 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapExtend[i]); fprintf (file, "\n"); | ^~~ Main-RNA.cc:284:89: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' 284 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapExtend[i]); fprintf (file, "\n"); | ^~~~~~~ Main-RNA.cc: In function 'MultiSequence* DoAlign(MultiSequence*, const ProbabilisticModel&, VF&, VF&, VF&, VVF&, VF&)': Main-RNA.cc:400:13: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 400 | if (enableVerbose) | ^~ Main-RNA.cc:403:15: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 403 | delete alignment.first; | ^~~~~~ Main.cc: In function 'void PrintParameters(const char*, const VF&, const VF&, const VF&, const VVF&, const VF&, const char*)': Main.cc:282:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] 282 | for (int i = 0; i < NumMatrixTypes; i++) fprintf (file, "%.10f ", initDistrib[i]); fprintf (file, "\n"); | ^~~ Main.cc:282:88: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' 282 | for (int i = 0; i < NumMatrixTypes; i++) fprintf (file, "%.10f ", initDistrib[i]); fprintf (file, "\n"); | ^~~~~~~ Main.cc:283:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] 283 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapOpen[i]); fprintf (file, "\n"); | ^~~ Main.cc:283:87: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' 283 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapOpen[i]); fprintf (file, "\n"); | ^~~~~~~ Main.cc:284:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] 284 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapExtend[i]); fprintf (file, "\n"); | ^~~ Main.cc:284:89: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' 284 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapExtend[i]); fprintf (file, "\n"); | ^~~~~~~ Main.cc: In function 'MultiSequence* DoAlign(MultiSequence*, const ProbabilisticModel&, VF&, VF&, VF&, VVF&, VF&)': Main.cc:400:13: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 400 | if (enableVerbose) | ^~ Main.cc:403:15: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 403 | delete alignment.first; | ^~~~~~ Main-RNA.cc: In function 'void ReadParameters()': Main-RNA.cc:893:40: warning: implicitly-declared 'SafeVector >& SafeVector >::operator=(const SafeVector >&)' is deprecated [-Wdeprecated-copy] 893 | emitPairs = VVF (256, VF (256, 1e-10)); | ^ SafeVector.h:29:3: note: because 'SafeVector >' has user-provided 'SafeVector::SafeVector(const SafeVector&) [with TYPE = SafeVector]' 29 | SafeVector (const SafeVector &source) : std::vector(source) {} | ^~~~~~~~~~ Main-RNA.cc:894:29: warning: implicitly-declared 'SafeVector& SafeVector::operator=(const SafeVector&)' is deprecated [-Wdeprecated-copy] 894 | emitSingle = VF (256, 1e-5); | ^ SafeVector.h:29:3: note: because 'SafeVector' has user-provided 'SafeVector::SafeVector(const SafeVector&) [with TYPE = float]' 29 | SafeVector (const SafeVector &source) : std::vector(source) {} | ^~~~~~~~~~ Main.cc: In function 'void ReadParameters()': Main.cc:893:40: warning: implicitly-declared 'SafeVector >& SafeVector >::operator=(const SafeVector >&)' is deprecated [-Wdeprecated-copy] 893 | emitPairs = VVF (256, VF (256, 1e-10)); | ^ SafeVector.h:29:3: note: because 'SafeVector >' has user-provided 'SafeVector::SafeVector(const SafeVector&) [with TYPE = SafeVector]' 29 | SafeVector (const SafeVector &source) : std::vector(source) {} | ^~~~~~~~~~ Main.cc:894:29: warning: implicitly-declared 'SafeVector& SafeVector::operator=(const SafeVector&)' is deprecated [-Wdeprecated-copy] 894 | emitSingle = VF (256, 1e-5); | ^ SafeVector.h:29:3: note: because 'SafeVector' has user-provided 'SafeVector::SafeVector(const SafeVector&) [with TYPE = float]' 29 | SafeVector (const SafeVector &source) : std::vector(source) {} | ^~~~~~~~~~ make[2]: Leaving directory '/build/reproducible-path/probcons-1.12' make[1]: Leaving directory '/build/reproducible-path/probcons-1.12' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_installdirs dh_auto_install dh_install dh_installdocs dh_installchangelogs dh_installexamples dh_installman dh_perl debian/rules override_dh_link make[1]: Entering directory '/build/reproducible-path/probcons-1.12' rm -rf /build/reproducible-path/probcons-1.12/debian/probcons-extra/usr/share/doc/probcons-extra dh_link -p probcons-extra usr/share/doc/probcons usr/share/doc/probcons-extra make[1]: Leaving directory '/build/reproducible-path/probcons-1.12' 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 'probcons-dbgsym' in '../probcons-dbgsym_1.12-14_amd64.deb'. dpkg-deb: building package 'probcons' in '../probcons_1.12-14_amd64.deb'. dpkg-deb: building package 'probcons-extra' in '../probcons-extra_1.12-14_amd64.deb'. dpkg-deb: building package 'probcons-extra-dbgsym' in '../probcons-extra-dbgsym_1.12-14_amd64.deb'. dpkg-genbuildinfo --build=binary -O../probcons_1.12-14_amd64.buildinfo dpkg-genchanges --build=binary -O../probcons_1.12-14_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/1733877 and its subdirectories I: Current time: Tue Aug 5 20:13:32 -12 2025 I: pbuilder-time-stamp: 1754468012 Wed Aug 6 08:13:32 UTC 2025 I: Signing ./b1/probcons_1.12-14_amd64.buildinfo as probcons_1.12-14_amd64.buildinfo.asc Wed Aug 6 08:13:32 UTC 2025 I: Signed ./b1/probcons_1.12-14_amd64.buildinfo as ./b1/probcons_1.12-14_amd64.buildinfo.asc Wed Aug 6 08:13:32 UTC 2025 - build #1 for probcons/unstable/amd64 on ionos11-amd64 done. Starting cleanup. All cleanup done. Wed Aug 6 08:13:32 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-hfnncWel, removing. /srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT: total 16 drwxr-xr-x 2 jenkins jenkins 4096 Aug 6 08:13 b1 drwxr-xr-x 2 jenkins jenkins 4096 Aug 6 08:12 b2 -rw-r--r-- 1 jenkins jenkins 2049 Aug 26 2021 probcons_1.12-14.dsc -rw------- 1 jenkins jenkins 3158 Aug 6 08:12 rbuildlog.MATVVfs /srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT/b1: total 1756 -rw-r--r-- 1 jenkins jenkins 31358 Aug 6 08:13 build.log -rw-r--r-- 1 jenkins jenkins 1120172 Aug 6 08:13 probcons-dbgsym_1.12-14_amd64.deb -rw-r--r-- 1 jenkins jenkins 418136 Aug 6 08:13 probcons-extra-dbgsym_1.12-14_amd64.deb -rw-r--r-- 1 jenkins jenkins 39184 Aug 6 08:13 probcons-extra_1.12-14_amd64.deb -rw-r--r-- 1 jenkins jenkins 13236 Aug 6 08:13 probcons_1.12-14.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2049 Aug 6 08:13 probcons_1.12-14.dsc -rw-r--r-- 1 jenkins jenkins 5457 Aug 6 08:13 probcons_1.12-14_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 6339 Aug 6 08:13 probcons_1.12-14_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 2061 Aug 6 08:13 probcons_1.12-14_amd64.changes -rw-r--r-- 1 jenkins jenkins 132868 Aug 6 08:13 probcons_1.12-14_amd64.deb -rw-r--r-- 1 jenkins jenkins 1235 Aug 6 08:13 probcons_1.12-14_source.changes /srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT/b2: total 0 Wed Aug 6 08:13:32 UTC 2025 I: Deleting $TMPDIR on ionos11-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Tue Aug 5 20:12:31 -12 2025 I: pbuilder-time-stamp: 1754467951 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [probcons_1.12-14.dsc] I: copying [./probcons_1.12.orig.tar.gz] I: copying [./probcons_1.12-14.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./probcons_1.12-14.dsc: no acceptable signature found dpkg-source: info: extracting probcons in probcons-1.12 dpkg-source: info: unpacking probcons_1.12.orig.tar.gz dpkg-source: info: unpacking probcons_1.12-14.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying 10_add-RNA-in-Makefile.patch dpkg-source: info: applying 11-Rename-programs-in-Makefile.patch dpkg-source: info: applying fix-gcc-4.5-headers 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/1733877/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=40 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='4d94ac26e76847e8b9cf95eafe64c9f5' 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='1733877' 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.adYF5aPT/pbuilderrc_smNp --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT/b1 --logfile b1/build.log probcons_1.12-14.dsc' SUDO_GID='111' SUDO_UID='106' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://46.16.76.132:3128' I: uname -a Linux ionos11-amd64 6.1.0-37-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.140-1 (2025-05-22) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 May 12 19:25 /bin -> usr/bin I: user script /srv/workspace/pbuilder/1733877/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) dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19850 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libtool{a} libuchardet0{a} libunistring5{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 29 newly installed, 0 to remove and 0 not upgraded. Need to get 11.2 MB of archives. After unpacking 42.7 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.25 [25.0 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.46-5 [338 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.46-5 [109 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.46-5 [43.6 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.23.1-2 [243 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-9 [1187 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.41-5 [94.6 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.1-1 [1469 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-8 [294 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3.1 [494 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20240727.1 [60.2 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.17-4 [862 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.23.1-2 [770 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.24.2 [90.9 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 libtool all 2.5.4-4 [539 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 22 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 libunistring5 amd64 1.3-2 [477 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-2.1 [698 kB] Get: 26 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.23.1-2 [1680 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.24.2 [919 kB] Fetched 11.2 MB in 0s (45.6 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 ... 19850 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.25_all.deb ... Unpacking sensible-utils (0.0.25) ... 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. 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Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/probcons-1.12/ && 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 > ../probcons_1.12-14_source.changes dpkg-buildpackage: info: source package probcons dpkg-buildpackage: info: source version 1.12-14 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 dh_auto_clean make -j40 clean make[1]: Entering directory '/build/reproducible-path/probcons-1.12' rm -f probcons probcons-RNA pc-compare pc-project pc-makegnuplot make[1]: Leaving directory '/build/reproducible-path/probcons-1.12' debian/rules override_dh_clean make[1]: Entering directory '/build/reproducible-path/probcons-1.12' dh_clean probcons probcons-RNA pc-project pc-compare pc-makegnuplot Main-RNA.cc Defaults-RNA.h make[1]: Leaving directory '/build/reproducible-path/probcons-1.12' debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/probcons-1.12' cp Main.cc Main-RNA.cc sed -i s/Defaults.h/Defaults-RNA.h/ Main-RNA.cc cp debian/Defaults-RNA.h Defaults-RNA.h dh_auto_build make -j40 "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/reproducible-path/probcons-1.12' g++ -O3 -W -Wall -pedantic -DNDEBUG -DNumInsertStates=2 -DVERSION="1.12" -funroll-loops -g -O2 -ffile-prefix-map=/build/reproducible-path/probcons-1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -lm -o probcons Main.cc -Wl,-z,relro -Wl,-z,now g++ -O3 -W -Wall -pedantic -DNDEBUG -DNumInsertStates=1 -DVERSION="1.12" -funroll-loops -g -O2 -ffile-prefix-map=/build/reproducible-path/probcons-1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -lm -o probcons-RNA Main-RNA.cc -Wl,-z,relro -Wl,-z,now g++ -O3 -W -Wall -pedantic -DNDEBUG -DNumInsertStates=2 -DVERSION="1.12" -funroll-loops -g -O2 -ffile-prefix-map=/build/reproducible-path/probcons-1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -o pc-compare CompareToRef.cc -Wl,-z,relro -Wl,-z,now g++ -O3 -W -Wall -pedantic -DNDEBUG -DNumInsertStates=2 -DVERSION="1.12" -funroll-loops -g -O2 -ffile-prefix-map=/build/reproducible-path/probcons-1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -o pc-project ProjectPairwise.cc -Wl,-z,relro -Wl,-z,now g++ -O3 -W -Wall -pedantic -DNDEBUG -DNumInsertStates=2 -DVERSION="1.12" -funroll-loops -g -O2 -ffile-prefix-map=/build/reproducible-path/probcons-1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -o pc-makegnuplot MakeGnuPlot.cc -Wl,-z,relro -Wl,-z,now In file included from MultiSequence.h:18, from CompareToRef.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 CompareToRef.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) {} | ^~~~~~~~~~ In file included from MultiSequence.h:18, from Main-RNA.cc:8: 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-RNA.cc:7: 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) {} | ^~~~~~~~~~ In file included from MultiSequence.h:18, from ProjectPairwise.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 ProjectPairwise.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) {} | ^~~~~~~~~~ In file included from MultiSequence.h:18, from Main.cc:8: 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:7: 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) {} | ^~~~~~~~~~ In file included from Main-RNA.cc:11: ProbabilisticModel.h: In member function 'void ProbabilisticModel::ComputeNewParameters(Sequence*, Sequence*, const VF&, const VF&, VF&, VF&, VF&, VVF&, VF&, bool) const': ProbabilisticModel.h:493:38: warning: suggest parentheses around '&&' within '||' [-Wparentheses] 493 | if (enableTrainEmissions && i != 1 || j != 1){ | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ ProbabilisticModel.h: In member function 'VF* ProbabilisticModel::BuildPosterior(MultiSequence*, MultiSequence*, const SafeVector >&, float) const': ProbabilisticModel.h:1027:18: warning: variable 'postPtr' set but not used [-Wunused-but-set-variable] 1027 | VF::iterator postPtr = posterior.begin(); | ^~~~~~~ In file included from Main.cc:11: ProbabilisticModel.h: In member function 'void ProbabilisticModel::ComputeNewParameters(Sequence*, Sequence*, const VF&, const VF&, VF&, VF&, VF&, VVF&, VF&, bool) const': ProbabilisticModel.h:493:38: warning: suggest parentheses around '&&' within '||' [-Wparentheses] 493 | if (enableTrainEmissions && i != 1 || j != 1){ | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ ProbabilisticModel.h: In member function 'VF* ProbabilisticModel::BuildPosterior(MultiSequence*, MultiSequence*, const SafeVector >&, float) const': ProbabilisticModel.h:1027:18: warning: variable 'postPtr' set but not used [-Wunused-but-set-variable] 1027 | VF::iterator postPtr = posterior.begin(); | ^~~~~~~ Main-RNA.cc: In function 'void PrintParameters(const char*, const VF&, const VF&, const VF&, const VVF&, const VF&, const char*)': Main-RNA.cc:282:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] 282 | for (int i = 0; i < NumMatrixTypes; i++) fprintf (file, "%.10f ", initDistrib[i]); fprintf (file, "\n"); | ^~~ Main-RNA.cc:282:88: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' 282 | for (int i = 0; i < NumMatrixTypes; i++) fprintf (file, "%.10f ", initDistrib[i]); fprintf (file, "\n"); | ^~~~~~~ Main-RNA.cc:283:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] 283 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapOpen[i]); fprintf (file, "\n"); | ^~~ Main-RNA.cc:283:87: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' 283 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapOpen[i]); fprintf (file, "\n"); | ^~~~~~~ Main-RNA.cc:284:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] 284 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapExtend[i]); fprintf (file, "\n"); | ^~~ Main-RNA.cc:284:89: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' 284 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapExtend[i]); fprintf (file, "\n"); | ^~~~~~~ Main-RNA.cc: In function 'MultiSequence* DoAlign(MultiSequence*, const ProbabilisticModel&, VF&, VF&, VF&, VVF&, VF&)': Main-RNA.cc:400:13: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 400 | if (enableVerbose) | ^~ Main-RNA.cc:403:15: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 403 | delete alignment.first; | ^~~~~~ Main.cc: In function 'void PrintParameters(const char*, const VF&, const VF&, const VF&, const VVF&, const VF&, const char*)': Main.cc:282:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] 282 | for (int i = 0; i < NumMatrixTypes; i++) fprintf (file, "%.10f ", initDistrib[i]); fprintf (file, "\n"); | ^~~ Main.cc:282:88: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' 282 | for (int i = 0; i < NumMatrixTypes; i++) fprintf (file, "%.10f ", initDistrib[i]); fprintf (file, "\n"); | ^~~~~~~ Main.cc:283:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] 283 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapOpen[i]); fprintf (file, "\n"); | ^~~ Main.cc:283:87: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' 283 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapOpen[i]); fprintf (file, "\n"); | ^~~~~~~ Main.cc:284:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] 284 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapExtend[i]); fprintf (file, "\n"); | ^~~ Main.cc:284:89: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' 284 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapExtend[i]); fprintf (file, "\n"); | ^~~~~~~ Main.cc: In function 'MultiSequence* DoAlign(MultiSequence*, const ProbabilisticModel&, VF&, VF&, VF&, VVF&, VF&)': Main.cc:400:13: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 400 | if (enableVerbose) | ^~ Main.cc:403:15: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 403 | delete alignment.first; | ^~~~~~ Main-RNA.cc: In function 'void ReadParameters()': Main-RNA.cc:893:40: warning: implicitly-declared 'SafeVector >& SafeVector >::operator=(const SafeVector >&)' is deprecated [-Wdeprecated-copy] 893 | emitPairs = VVF (256, VF (256, 1e-10)); | ^ SafeVector.h:29:3: note: because 'SafeVector >' has user-provided 'SafeVector::SafeVector(const SafeVector&) [with TYPE = SafeVector]' 29 | SafeVector (const SafeVector &source) : std::vector(source) {} | ^~~~~~~~~~ Main-RNA.cc:894:29: warning: implicitly-declared 'SafeVector& SafeVector::operator=(const SafeVector&)' is deprecated [-Wdeprecated-copy] 894 | emitSingle = VF (256, 1e-5); | ^ SafeVector.h:29:3: note: because 'SafeVector' has user-provided 'SafeVector::SafeVector(const SafeVector&) [with TYPE = float]' 29 | SafeVector (const SafeVector &source) : std::vector(source) {} | ^~~~~~~~~~ Main.cc: In function 'void ReadParameters()': Main.cc:893:40: warning: implicitly-declared 'SafeVector >& SafeVector >::operator=(const SafeVector >&)' is deprecated [-Wdeprecated-copy] 893 | emitPairs = VVF (256, VF (256, 1e-10)); | ^ SafeVector.h:29:3: note: because 'SafeVector >' has user-provided 'SafeVector::SafeVector(const SafeVector&) [with TYPE = SafeVector]' 29 | SafeVector (const SafeVector &source) : std::vector(source) {} | ^~~~~~~~~~ Main.cc:894:29: warning: implicitly-declared 'SafeVector& SafeVector::operator=(const SafeVector&)' is deprecated [-Wdeprecated-copy] 894 | emitSingle = VF (256, 1e-5); | ^ SafeVector.h:29:3: note: because 'SafeVector' has user-provided 'SafeVector::SafeVector(const SafeVector&) [with TYPE = float]' 29 | SafeVector (const SafeVector &source) : std::vector(source) {} | ^~~~~~~~~~ make[2]: Leaving directory '/build/reproducible-path/probcons-1.12' make[1]: Leaving directory '/build/reproducible-path/probcons-1.12' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_installdirs dh_auto_install dh_install dh_installdocs dh_installchangelogs dh_installexamples dh_installman dh_perl debian/rules override_dh_link make[1]: Entering directory '/build/reproducible-path/probcons-1.12' rm -rf /build/reproducible-path/probcons-1.12/debian/probcons-extra/usr/share/doc/probcons-extra dh_link -p probcons-extra usr/share/doc/probcons usr/share/doc/probcons-extra make[1]: Leaving directory '/build/reproducible-path/probcons-1.12' 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 'probcons-dbgsym' in '../probcons-dbgsym_1.12-14_amd64.deb'. dpkg-deb: building package 'probcons' in '../probcons_1.12-14_amd64.deb'. dpkg-deb: building package 'probcons-extra' in '../probcons-extra_1.12-14_amd64.deb'. dpkg-deb: building package 'probcons-extra-dbgsym' in '../probcons-extra-dbgsym_1.12-14_amd64.deb'. dpkg-genbuildinfo --build=binary -O../probcons_1.12-14_amd64.buildinfo dpkg-genchanges --build=binary -O../probcons_1.12-14_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/1733877 and its subdirectories I: Current time: Tue Aug 5 20:13:32 -12 2025 I: pbuilder-time-stamp: 1754468012 Wed Aug 6 08:13:33 UTC 2025 I: 1st build successful. Starting 2nd build on remote node ionos15-amd64.debian.net. Wed Aug 6 08:13:33 UTC 2025 I: Preparing to do remote build '2' on ionos15-amd64.debian.net. Wed Aug 6 08:13:33 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos15-amd64.debian.net is marked as down. Wed Aug 6 08:13:33 UTC 2025 - checking via ssh if ionos15-amd64.debian.net is up. removed '/tmp/read-only-fs-test-nXvDzG' ==================================================================================== Tue Sep 8 14:36:33 UTC 2026 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on ionos15-amd64, called using "2 probcons unstable /srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT 1.12-14" as arguments. Tue Sep 8 14:36:33 UTC 2026 - actually running "reproducible_build.sh" (md5sum 44ec6a3142940d5e9a7ab76543d96029) as "/tmp/jenkins-script-VeBvXSkB" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Tue Sep 8 14:36:33 UTC 2026 I: Downloading source for unstable/probcons=1.12-14 Reading package lists... NOTICE: 'probcons' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/probcons.git Please use: git clone https://salsa.debian.org/med-team/probcons.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 58.5 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main probcons 1.12-14 (dsc) [2049 B] Get:2 http://deb.debian.org/debian unstable/main probcons 1.12-14 (tar) [43.2 kB] Get:3 http://deb.debian.org/debian unstable/main probcons 1.12-14 (diff) [13.2 kB] Fetched 58.5 kB in 0s (2134 kB/s) Download complete and in download only mode Reading package lists... NOTICE: 'probcons' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/probcons.git Please use: git clone https://salsa.debian.org/med-team/probcons.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 58.5 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main probcons 1.12-14 (dsc) [2049 B] Get:2 http://deb.debian.org/debian unstable/main probcons 1.12-14 (tar) [43.2 kB] Get:3 http://deb.debian.org/debian unstable/main probcons 1.12-14 (diff) [13.2 kB] Fetched 58.5 kB in 0s (2134 kB/s) Download complete and in download only mode ============================================================================= Re-Building probcons in unstable on amd64 on ionos15-amd64 now. Date: Tue Sep 8 14:36:33 UTC 2026 Date UTC: Tue Sep 8 14:36:33 UTC 2026 ============================================================================= ++ mktemp -t pbuilderrc_XXXX --tmpdir=/srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT + local TMPCFG=/srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT/pbuilderrc_X7GE + case ${ARCH} in + case $ARCH in + locale=et_EE + language=et + case "${SUITE}" in + reproducible_buildflags=+all + extra_deb_build_options= + case "${SRCPACKAGE}" in + cat + echo BUILDDIR=/build/reproducible-path + '[' probcons = debian-installer -o probcons = debian-installer-netboot-images ']' + pbuilder_options=() + local pbuilder_options + DEBBUILDOPTS=-b + BINARYTARGET= + '[' probcons = u-boot ']' + case "${SRCPACKAGE}" in + PBUILDERTIMEOUT=24 + local PRESULT=0 + sudo timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT/pbuilderrc_X7GE --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT/b2 --logfile b2/build.log probcons_1.12-14.dsc W: /root/.pbuilderrc does not exist I: Logging to b2/build.log I: pbuilder: network access will be disabled during build I: Current time: Wed Sep 9 04:36:34 +14 2026 I: pbuilder-time-stamp: 1788878194 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [probcons_1.12-14.dsc] I: copying [./probcons_1.12.orig.tar.gz] I: copying [./probcons_1.12-14.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./probcons_1.12-14.dsc: no acceptable signature found dpkg-source: info: extracting probcons in probcons-1.12 dpkg-source: info: unpacking probcons_1.12.orig.tar.gz dpkg-source: info: unpacking probcons_1.12-14.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying 10_add-RNA-in-Makefile.patch dpkg-source: info: applying 11-Rename-programs-in-Makefile.patch dpkg-source: info: applying fix-gcc-4.5-headers 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/568304/tmp/hooks/D01_modify_environment starting debug: Running on ionos15-amd64. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash '/bin/sh' -> '/bin/bash' lrwxrwxrwx 1 root root 9 Sep 8 14:37 /bin/sh -> /bin/bash I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/568304/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/568304/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="2" [2]="37" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") BASH_VERSION='5.2.37(1)-release' BUILDDIR=/build/reproducible-path BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=amd64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' DIRSTACK=() DISTRIBUTION=unstable EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=x86_64 HOST_ARCH=amd64 IFS=' ' INVOCATION_ID=9e328c1b53a04b63bd507c5649f51755 LANG=C LANGUAGE=et_EE:et LC_ALL=C MACHTYPE=x86_64-pc-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=568304 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT/pbuilderrc_X7GE --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT/b2 --logfile b2/build.log probcons_1.12-14.dsc' SUDO_GID=111 SUDO_UID=106 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://213.165.73.152:3128 I: uname -a Linux i-capture-the-hostname 6.12.33+deb12-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.33-1~bpo12+1 (2025-07-09) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 May 12 2025 /bin -> usr/bin I: user script /srv/workspace/pbuilder/568304/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) dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19850 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libtool{a} libuchardet0{a} libunistring5{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 29 newly installed, 0 to remove and 0 not upgraded. Need to get 11.2 MB of archives. After unpacking 42.7 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.25 [25.0 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.46-5 [338 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.46-5 [109 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.46-5 [43.6 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.23.1-2 [243 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-9 [1187 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.41-5 [94.6 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.1-1 [1469 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-8 [294 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3.1 [494 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20240727.1 [60.2 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.17-4 [862 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.23.1-2 [770 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.24.2 [90.9 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 libtool all 2.5.4-4 [539 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 22 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 libunistring5 amd64 1.3-2 [477 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-2.1 [698 kB] Get: 26 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.23.1-2 [1680 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.24.2 [919 kB] Fetched 11.2 MB in 0s (43.6 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 ... 19850 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.25_all.deb ... Unpacking sensible-utils (0.0.25) ... 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_amd64.deb ... Unpacking gettext-base (0.23.1-2) ... 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_1.23.0-9_amd64.deb ... Unpacking groff-base (1.23.0-9) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.41-5_amd64.deb ... Unpacking bsdextrautils (2.41-5) ... 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_1.4.19-8_amd64.deb ... Unpacking m4 (1.4.19-8) ... 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_13.24.2_all.deb ... Unpacking libdebhelper-perl (13.24.2) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.5.4-4_all.deb ... Unpacking libtool (2.5.4-4) ... 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_1.14.1-2_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.1-2) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../20-dh-strip-nondeterminism_1.14.1-2_all.deb ... Unpacking dh-strip-nondeterminism (1.14.1-2) ... 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:amd64. Preparing to unpack .../24-libxml2_2.12.7+dfsg+really2.9.14-2.1_amd64.deb ... Unpacking libxml2:amd64 (2.12.7+dfsg+really2.9.14-2.1) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_0.23.1-2_amd64.deb ... Unpacking gettext (0.23.1-2) ... 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) ... 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Building tag database... -> Finished parsing the build-deps I: Building the package I: user script /srv/workspace/pbuilder/568304/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for unstable I: user script /srv/workspace/pbuilder/568304/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/probcons-1.12/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../probcons_1.12-14_source.changes dpkg-buildpackage: info: source package probcons dpkg-buildpackage: info: source version 1.12-14 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 dh_auto_clean make -j42 clean make[1]: Entering directory '/build/reproducible-path/probcons-1.12' rm -f probcons probcons-RNA pc-compare pc-project pc-makegnuplot make[1]: Leaving directory '/build/reproducible-path/probcons-1.12' debian/rules override_dh_clean make[1]: Entering directory '/build/reproducible-path/probcons-1.12' dh_clean probcons probcons-RNA pc-project pc-compare pc-makegnuplot Main-RNA.cc Defaults-RNA.h make[1]: Leaving directory '/build/reproducible-path/probcons-1.12' debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/probcons-1.12' cp Main.cc Main-RNA.cc sed -i s/Defaults.h/Defaults-RNA.h/ Main-RNA.cc cp debian/Defaults-RNA.h Defaults-RNA.h dh_auto_build make -j42 "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/reproducible-path/probcons-1.12' g++ -O3 -W -Wall -pedantic -DNDEBUG -DNumInsertStates=2 -DVERSION="1.12" -funroll-loops -g -O2 -ffile-prefix-map=/build/reproducible-path/probcons-1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -lm -o probcons Main.cc -Wl,-z,relro -Wl,-z,now g++ -O3 -W -Wall -pedantic -DNDEBUG -DNumInsertStates=1 -DVERSION="1.12" -funroll-loops -g -O2 -ffile-prefix-map=/build/reproducible-path/probcons-1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -lm -o probcons-RNA Main-RNA.cc -Wl,-z,relro -Wl,-z,now g++ -O3 -W -Wall -pedantic -DNDEBUG -DNumInsertStates=2 -DVERSION="1.12" -funroll-loops -g -O2 -ffile-prefix-map=/build/reproducible-path/probcons-1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -o pc-compare CompareToRef.cc -Wl,-z,relro -Wl,-z,now g++ -O3 -W -Wall -pedantic -DNDEBUG -DNumInsertStates=2 -DVERSION="1.12" -funroll-loops -g -O2 -ffile-prefix-map=/build/reproducible-path/probcons-1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -o pc-project ProjectPairwise.cc -Wl,-z,relro -Wl,-z,now g++ -O3 -W -Wall -pedantic -DNDEBUG -DNumInsertStates=2 -DVERSION="1.12" -funroll-loops -g -O2 -ffile-prefix-map=/build/reproducible-path/probcons-1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -o pc-makegnuplot MakeGnuPlot.cc -Wl,-z,relro -Wl,-z,now In file included from MultiSequence.h:18, from ProjectPairwise.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 ProjectPairwise.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) {} | ^~~~~~~~~~ In file included from MultiSequence.h:18, from Main.cc:8: 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:7: 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) {} | ^~~~~~~~~~ In file included from MultiSequence.h:18, from CompareToRef.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 CompareToRef.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) {} | ^~~~~~~~~~ In file included from MultiSequence.h:18, from Main-RNA.cc:8: 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-RNA.cc:7: 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) {} | ^~~~~~~~~~ In file included from Main.cc:11: ProbabilisticModel.h: In member function 'void ProbabilisticModel::ComputeNewParameters(Sequence*, Sequence*, const VF&, const VF&, VF&, VF&, VF&, VVF&, VF&, bool) const': ProbabilisticModel.h:493:38: warning: suggest parentheses around '&&' within '||' [-Wparentheses] 493 | if (enableTrainEmissions && i != 1 || j != 1){ | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ ProbabilisticModel.h: In member function 'VF* ProbabilisticModel::BuildPosterior(MultiSequence*, MultiSequence*, const SafeVector >&, float) const': ProbabilisticModel.h:1027:18: warning: variable 'postPtr' set but not used [-Wunused-but-set-variable] 1027 | VF::iterator postPtr = posterior.begin(); | ^~~~~~~ In file included from Main-RNA.cc:11: ProbabilisticModel.h: In member function 'void ProbabilisticModel::ComputeNewParameters(Sequence*, Sequence*, const VF&, const VF&, VF&, VF&, VF&, VVF&, VF&, bool) const': ProbabilisticModel.h:493:38: warning: suggest parentheses around '&&' within '||' [-Wparentheses] 493 | if (enableTrainEmissions && i != 1 || j != 1){ | ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~ ProbabilisticModel.h: In member function 'VF* ProbabilisticModel::BuildPosterior(MultiSequence*, MultiSequence*, const SafeVector >&, float) const': ProbabilisticModel.h:1027:18: warning: variable 'postPtr' set but not used [-Wunused-but-set-variable] 1027 | VF::iterator postPtr = posterior.begin(); | ^~~~~~~ Main.cc: In function 'void PrintParameters(const char*, const VF&, const VF&, const VF&, const VVF&, const VF&, const char*)': Main.cc:282:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] 282 | for (int i = 0; i < NumMatrixTypes; i++) fprintf (file, "%.10f ", initDistrib[i]); fprintf (file, "\n"); | ^~~ Main.cc:282:88: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' 282 | for (int i = 0; i < NumMatrixTypes; i++) fprintf (file, "%.10f ", initDistrib[i]); fprintf (file, "\n"); | ^~~~~~~ Main.cc:283:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] 283 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapOpen[i]); fprintf (file, "\n"); | ^~~ Main.cc:283:87: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' 283 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapOpen[i]); fprintf (file, "\n"); | ^~~~~~~ Main.cc:284:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] 284 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapExtend[i]); fprintf (file, "\n"); | ^~~ Main.cc:284:89: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' 284 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapExtend[i]); fprintf (file, "\n"); | ^~~~~~~ Main.cc: In function 'MultiSequence* DoAlign(MultiSequence*, const ProbabilisticModel&, VF&, VF&, VF&, VVF&, VF&)': Main.cc:400:13: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 400 | if (enableVerbose) | ^~ Main.cc:403:15: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 403 | delete alignment.first; | ^~~~~~ Main-RNA.cc: In function 'void PrintParameters(const char*, const VF&, const VF&, const VF&, const VVF&, const VF&, const char*)': Main-RNA.cc:282:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] 282 | for (int i = 0; i < NumMatrixTypes; i++) fprintf (file, "%.10f ", initDistrib[i]); fprintf (file, "\n"); | ^~~ Main-RNA.cc:282:88: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' 282 | for (int i = 0; i < NumMatrixTypes; i++) fprintf (file, "%.10f ", initDistrib[i]); fprintf (file, "\n"); | ^~~~~~~ Main-RNA.cc:283:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] 283 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapOpen[i]); fprintf (file, "\n"); | ^~~ Main-RNA.cc:283:87: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' 283 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapOpen[i]); fprintf (file, "\n"); | ^~~~~~~ Main-RNA.cc:284:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] 284 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapExtend[i]); fprintf (file, "\n"); | ^~~ Main-RNA.cc:284:89: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' 284 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapExtend[i]); fprintf (file, "\n"); | ^~~~~~~ Main-RNA.cc: In function 'MultiSequence* DoAlign(MultiSequence*, const ProbabilisticModel&, VF&, VF&, VF&, VVF&, VF&)': Main-RNA.cc:400:13: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 400 | if (enableVerbose) | ^~ Main-RNA.cc:403:15: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 403 | delete alignment.first; | ^~~~~~ Main.cc: In function 'void ReadParameters()': Main.cc:893:40: warning: implicitly-declared 'SafeVector >& SafeVector >::operator=(const SafeVector >&)' is deprecated [-Wdeprecated-copy] 893 | emitPairs = VVF (256, VF (256, 1e-10)); | ^ SafeVector.h:29:3: note: because 'SafeVector >' has user-provided 'SafeVector::SafeVector(const SafeVector&) [with TYPE = SafeVector]' 29 | SafeVector (const SafeVector &source) : std::vector(source) {} | ^~~~~~~~~~ Main.cc:894:29: warning: implicitly-declared 'SafeVector& SafeVector::operator=(const SafeVector&)' is deprecated [-Wdeprecated-copy] 894 | emitSingle = VF (256, 1e-5); | ^ SafeVector.h:29:3: note: because 'SafeVector' has user-provided 'SafeVector::SafeVector(const SafeVector&) [with TYPE = float]' 29 | SafeVector (const SafeVector &source) : std::vector(source) {} | ^~~~~~~~~~ Main-RNA.cc: In function 'void ReadParameters()': Main-RNA.cc:893:40: warning: implicitly-declared 'SafeVector >& SafeVector >::operator=(const SafeVector >&)' is deprecated [-Wdeprecated-copy] 893 | emitPairs = VVF (256, VF (256, 1e-10)); | ^ SafeVector.h:29:3: note: because 'SafeVector >' has user-provided 'SafeVector::SafeVector(const SafeVector&) [with TYPE = SafeVector]' 29 | SafeVector (const SafeVector &source) : std::vector(source) {} | ^~~~~~~~~~ Main-RNA.cc:894:29: warning: implicitly-declared 'SafeVector& SafeVector::operator=(const SafeVector&)' is deprecated [-Wdeprecated-copy] 894 | emitSingle = VF (256, 1e-5); | ^ SafeVector.h:29:3: note: because 'SafeVector' has user-provided 'SafeVector::SafeVector(const SafeVector&) [with TYPE = float]' 29 | SafeVector (const SafeVector &source) : std::vector(source) {} | ^~~~~~~~~~ make[2]: Leaving directory '/build/reproducible-path/probcons-1.12' make[1]: Leaving directory '/build/reproducible-path/probcons-1.12' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_installdirs dh_auto_install dh_install dh_installdocs dh_installchangelogs dh_installexamples dh_installman dh_perl debian/rules override_dh_link make[1]: Entering directory '/build/reproducible-path/probcons-1.12' rm -rf /build/reproducible-path/probcons-1.12/debian/probcons-extra/usr/share/doc/probcons-extra dh_link -p probcons-extra usr/share/doc/probcons usr/share/doc/probcons-extra make[1]: Leaving directory '/build/reproducible-path/probcons-1.12' 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 'probcons-dbgsym' in '../probcons-dbgsym_1.12-14_amd64.deb'. dpkg-deb: building package 'probcons' in '../probcons_1.12-14_amd64.deb'. dpkg-deb: building package 'probcons-extra-dbgsym' in '../probcons-extra-dbgsym_1.12-14_amd64.deb'. dpkg-deb: building package 'probcons-extra' in '../probcons-extra_1.12-14_amd64.deb'. dpkg-genbuildinfo --build=binary -O../probcons_1.12-14_amd64.buildinfo dpkg-genchanges --build=binary -O../probcons_1.12-14_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: user script /srv/workspace/pbuilder/568304/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/568304/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/568304 and its subdirectories I: Current time: Wed Sep 9 04:38:17 +14 2026 I: pbuilder-time-stamp: 1788878297 + false + set +x Tue Sep 8 14:38:17 UTC 2026 I: Signing ./b2/probcons_1.12-14_amd64.buildinfo as probcons_1.12-14_amd64.buildinfo.asc Tue Sep 8 14:38:17 UTC 2026 I: Signed ./b2/probcons_1.12-14_amd64.buildinfo as ./b2/probcons_1.12-14_amd64.buildinfo.asc Tue Sep 8 14:38:17 UTC 2026 - build #2 for probcons/unstable/amd64 on ionos15-amd64 done. Starting cleanup. All cleanup done. Tue Sep 8 14:38:17 UTC 2026 - reproducible_build.sh stopped running as /tmp/jenkins-script-VeBvXSkB, removing. /srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT: total 48 drwxr-xr-x 2 jenkins jenkins 4096 Aug 6 08:13 b1 drwxr-xr-x 2 jenkins jenkins 4096 Aug 6 08:15 b2 -rw-r--r-- 1 jenkins jenkins 2049 Aug 26 2021 probcons_1.12-14.dsc -rw------- 1 jenkins jenkins 34805 Aug 6 08:13 rbuildlog.MATVVfs /srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT/b1: total 1768 -rw-r--r-- 1 jenkins jenkins 31358 Aug 6 08:13 build.log -rw-r--r-- 1 jenkins jenkins 1120172 Aug 6 08:13 probcons-dbgsym_1.12-14_amd64.deb -rw-r--r-- 1 jenkins jenkins 418136 Aug 6 08:13 probcons-extra-dbgsym_1.12-14_amd64.deb -rw-r--r-- 1 jenkins jenkins 39184 Aug 6 08:13 probcons-extra_1.12-14_amd64.deb -rw-r--r-- 1 jenkins jenkins 13236 Aug 6 08:13 probcons_1.12-14.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2049 Aug 6 08:13 probcons_1.12-14.dsc -rw-r--r-- 1 jenkins jenkins 5457 Aug 6 08:13 probcons_1.12-14_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 6339 Aug 6 08:13 probcons_1.12-14_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 2061 Aug 6 08:13 probcons_1.12-14_amd64.changes -rw-r--r-- 1 jenkins jenkins 132868 Aug 6 08:13 probcons_1.12-14_amd64.deb -rw-r--r-- 1 jenkins jenkins 1235 Aug 6 08:13 probcons_1.12-14_source.changes /srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT/b2: total 1760 -rw-r--r-- 1 jenkins jenkins 33295 Aug 6 08:15 build.log -rw-r--r-- 1 jenkins jenkins 1120172 Aug 6 08:15 probcons-dbgsym_1.12-14_amd64.deb -rw-r--r-- 1 jenkins jenkins 418136 Aug 6 08:15 probcons-extra-dbgsym_1.12-14_amd64.deb -rw-r--r-- 1 jenkins jenkins 39184 Aug 6 08:15 probcons-extra_1.12-14_amd64.deb -rw-r--r-- 1 jenkins jenkins 13236 Aug 6 08:15 probcons_1.12-14.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2049 Aug 6 08:15 probcons_1.12-14.dsc -rw-r--r-- 1 jenkins jenkins 5470 Aug 6 08:15 probcons_1.12-14_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 6352 Aug 6 08:15 probcons_1.12-14_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 2061 Aug 6 08:15 probcons_1.12-14_amd64.changes -rw-r--r-- 1 jenkins jenkins 132868 Aug 6 08:15 probcons_1.12-14_amd64.deb -rw-r--r-- 1 jenkins jenkins 1235 Aug 6 08:15 probcons_1.12-14_source.changes Wed Aug 6 08:15:18 UTC 2025 I: Deleting $TMPDIR on ionos15-amd64.debian.net. Wed Aug 6 08:15:19 UTC 2025 I: probcons_1.12-14_amd64.changes: Format: 1.8 Date: Thu, 26 Aug 2021 10:37:09 +0200 Source: probcons Binary: probcons probcons-dbgsym probcons-extra probcons-extra-dbgsym Architecture: amd64 Version: 1.12-14 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: probcons - PROBabilistic CONSistency-based multiple sequence alignment probcons-extra - Extra programs from the probcons package Changes: probcons (1.12-14) unstable; urgency=medium . * Remove outdated copyright file * Standards-Version: 4.6.0 (routine-update) Checksums-Sha1: 364432fa741bc34a05ca2d23e92bbc4b4a641b49 1120172 probcons-dbgsym_1.12-14_amd64.deb 96c428e849c85e2bb742ead03f163dbd792ec68e 418136 probcons-extra-dbgsym_1.12-14_amd64.deb 5cf160f072b2e24dd69c2241b26cff9d0d880f67 39184 probcons-extra_1.12-14_amd64.deb 12d4579759f771a2c4cd9c358f82ab20b9e47d78 5457 probcons_1.12-14_amd64.buildinfo f980c8afcbd3bacf1b4ccece60f0a862168e9077 132868 probcons_1.12-14_amd64.deb Checksums-Sha256: 569192511268a306043367315952cdf5547646fcdb9d08d0615cba8c6801ffe8 1120172 probcons-dbgsym_1.12-14_amd64.deb 1ad9519bcc77997d787cd19cb7aa63ad687c2baeffd5048a11629dc3462d90df 418136 probcons-extra-dbgsym_1.12-14_amd64.deb 22b10c9a020d232c1f1aad06d1862eede57c39665d1fc4845aa850505ddd6ede 39184 probcons-extra_1.12-14_amd64.deb 376b96fd637a102e6435086840bfe7abed53621e80e6a2234e3125fd14fc53cd 5457 probcons_1.12-14_amd64.buildinfo d3471b530025394eeb84b738868debc5d4773329b298abc0815a997df4047b76 132868 probcons_1.12-14_amd64.deb Files: 19b343870a641b2725b95d90f0f88016 1120172 debug optional probcons-dbgsym_1.12-14_amd64.deb 1bbfb08199c99cc521bcd33ff77f09ab 418136 debug optional probcons-extra-dbgsym_1.12-14_amd64.deb 38614f0e17490bff991f28be51f7b143 39184 science optional probcons-extra_1.12-14_amd64.deb 16b5f0debbfeeb3a8bd67df02d6460c4 5457 science optional probcons_1.12-14_amd64.buildinfo 86be7bee65eb8dbd83ac379cbc394dfe 132868 science optional probcons_1.12-14_amd64.deb removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/probcons_1.12-14.rbuild.log' removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/probcons_1.12-14.rbuild.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/unstable/amd64/probcons_1.12-14.build1.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/unstable/amd64/probcons_1.12-14.build2.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/buildinfo/unstable/amd64/probcons_1.12-14_amd64.buildinfo' removed '/var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/amd64/probcons_1.12-14.diff.gz' Diff of the two buildlogs: -- --- b1/build.log 2025-08-06 08:13:32.852318020 +0000 +++ b2/build.log 2025-08-06 08:15:18.336449260 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Tue Aug 5 20:12:31 -12 2025 -I: pbuilder-time-stamp: 1754467951 +I: Current time: Wed Sep 9 04:36:34 +14 2026 +I: pbuilder-time-stamp: 1788878194 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -29,52 +29,84 @@ dpkg-source: info: applying mayhem.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/1733877/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/568304/tmp/hooks/D01_modify_environment starting +debug: Running on ionos15-amd64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Sep 8 14:37 /bin/sh -> /bin/bash +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/568304/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/568304/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=40 ' - DISTRIBUTION='unstable' - HOME='/root' - HOST_ARCH='amd64' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="37" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.2.37(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' + DIRSTACK=() + DISTRIBUTION=unstable + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='4d94ac26e76847e8b9cf95eafe64c9f5' - 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='1733877' - PS1='# ' - PS2='> ' + INVOCATION_ID=9e328c1b53a04b63bd507c5649f51755 + LANG=C + LANGUAGE=et_EE:et + LC_ALL=C + MACHTYPE=x86_64-pc-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=568304 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.adYF5aPT/pbuilderrc_smNp --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT/b1 --logfile b1/build.log probcons_1.12-14.dsc' - SUDO_GID='111' - SUDO_UID='106' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://46.16.76.132:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT/pbuilderrc_X7GE --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT/b2 --logfile b2/build.log probcons_1.12-14.dsc' + SUDO_GID=111 + SUDO_UID=106 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://213.165.73.152:3128 I: uname -a - Linux ionos11-amd64 6.1.0-37-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.140-1 (2025-05-22) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.12.33+deb12-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.33-1~bpo12+1 (2025-07-09) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 May 12 19:25 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/1733877/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 May 12 2025 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/568304/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -139,7 +171,7 @@ Get: 27 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.24.2 [919 kB] -Fetched 11.2 MB in 0s (45.6 MB/s) +Fetched 11.2 MB in 0s (43.6 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 ... 19850 files and directories currently installed.) @@ -270,7 +302,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/probcons-1.12/ && 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 > ../probcons_1.12-14_source.changes +I: user script /srv/workspace/pbuilder/568304/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/568304/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/probcons-1.12/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../probcons_1.12-14_source.changes dpkg-buildpackage: info: source package probcons dpkg-buildpackage: info: source version 1.12-14 dpkg-buildpackage: info: source distribution unstable @@ -280,7 +316,7 @@ debian/rules clean dh clean dh_auto_clean - make -j40 clean + make -j42 clean make[1]: Entering directory '/build/reproducible-path/probcons-1.12' rm -f probcons probcons-RNA pc-compare pc-project pc-makegnuplot make[1]: Leaving directory '/build/reproducible-path/probcons-1.12' @@ -299,7 +335,7 @@ sed -i s/Defaults.h/Defaults-RNA.h/ Main-RNA.cc cp debian/Defaults-RNA.h Defaults-RNA.h dh_auto_build - make -j40 "INSTALL=install --strip-program=true" + make -j42 "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/reproducible-path/probcons-1.12' g++ -O3 -W -Wall -pedantic -DNDEBUG -DNumInsertStates=2 -DVERSION="1.12" -funroll-loops -g -O2 -ffile-prefix-map=/build/reproducible-path/probcons-1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -lm -o probcons Main.cc -Wl,-z,relro -Wl,-z,now g++ -O3 -W -Wall -pedantic -DNDEBUG -DNumInsertStates=1 -DVERSION="1.12" -funroll-loops -g -O2 -ffile-prefix-map=/build/reproducible-path/probcons-1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -lm -o probcons-RNA Main-RNA.cc -Wl,-z,relro -Wl,-z,now @@ -307,46 +343,46 @@ g++ -O3 -W -Wall -pedantic -DNDEBUG -DNumInsertStates=2 -DVERSION="1.12" -funroll-loops -g -O2 -ffile-prefix-map=/build/reproducible-path/probcons-1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -o pc-project ProjectPairwise.cc -Wl,-z,relro -Wl,-z,now g++ -O3 -W -Wall -pedantic -DNDEBUG -DNumInsertStates=2 -DVERSION="1.12" -funroll-loops -g -O2 -ffile-prefix-map=/build/reproducible-path/probcons-1.12=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -o pc-makegnuplot MakeGnuPlot.cc -Wl,-z,relro -Wl,-z,now In file included from MultiSequence.h:18, - from CompareToRef.cc:9: + from ProjectPairwise.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 CompareToRef.cc:8: +In file included from ProjectPairwise.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) {} | ^~~~~~~~~~ In file included from MultiSequence.h:18, - from Main-RNA.cc:8: + from Main.cc:8: 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-RNA.cc:7: +In file included from Main.cc:7: 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) {} | ^~~~~~~~~~ In file included from MultiSequence.h:18, - from ProjectPairwise.cc:9: + from CompareToRef.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 ProjectPairwise.cc:8: +In file included from CompareToRef.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) {} | ^~~~~~~~~~ In file included from MultiSequence.h:18, - from Main.cc:8: + from Main-RNA.cc:8: 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:7: +In file included from Main-RNA.cc:7: 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) {} | ^~~~~~~~~~ -In file included from Main-RNA.cc:11: +In file included from Main.cc:11: ProbabilisticModel.h: In member function 'void ProbabilisticModel::ComputeNewParameters(Sequence*, Sequence*, const VF&, const VF&, VF&, VF&, VF&, VVF&, VF&, bool) const': ProbabilisticModel.h:493:38: warning: suggest parentheses around '&&' within '||' [-Wparentheses] 493 | if (enableTrainEmissions && i != 1 || j != 1){ @@ -355,7 +391,7 @@ ProbabilisticModel.h:1027:18: warning: variable 'postPtr' set but not used [-Wunused-but-set-variable] 1027 | VF::iterator postPtr = posterior.begin(); | ^~~~~~~ -In file included from Main.cc:11: +In file included from Main-RNA.cc:11: ProbabilisticModel.h: In member function 'void ProbabilisticModel::ComputeNewParameters(Sequence*, Sequence*, const VF&, const VF&, VF&, VF&, VF&, VVF&, VF&, bool) const': ProbabilisticModel.h:493:38: warning: suggest parentheses around '&&' within '||' [-Wparentheses] 493 | if (enableTrainEmissions && i != 1 || j != 1){ @@ -364,79 +400,79 @@ ProbabilisticModel.h:1027:18: warning: variable 'postPtr' set but not used [-Wunused-but-set-variable] 1027 | VF::iterator postPtr = posterior.begin(); | ^~~~~~~ -Main-RNA.cc: In function 'void PrintParameters(const char*, const VF&, const VF&, const VF&, const VVF&, const VF&, const char*)': -Main-RNA.cc:282:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] +Main.cc: In function 'void PrintParameters(const char*, const VF&, const VF&, const VF&, const VVF&, const VF&, const char*)': +Main.cc:282:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] 282 | for (int i = 0; i < NumMatrixTypes; i++) fprintf (file, "%.10f ", initDistrib[i]); fprintf (file, "\n"); | ^~~ -Main-RNA.cc:282:88: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' +Main.cc:282:88: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' 282 | for (int i = 0; i < NumMatrixTypes; i++) fprintf (file, "%.10f ", initDistrib[i]); fprintf (file, "\n"); | ^~~~~~~ -Main-RNA.cc:283:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] +Main.cc:283:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] 283 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapOpen[i]); fprintf (file, "\n"); | ^~~ -Main-RNA.cc:283:87: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' +Main.cc:283:87: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' 283 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapOpen[i]); fprintf (file, "\n"); | ^~~~~~~ -Main-RNA.cc:284:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] +Main.cc:284:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] 284 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapExtend[i]); fprintf (file, "\n"); | ^~~ -Main-RNA.cc:284:89: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' +Main.cc:284:89: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' 284 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapExtend[i]); fprintf (file, "\n"); | ^~~~~~~ -Main-RNA.cc: In function 'MultiSequence* DoAlign(MultiSequence*, const ProbabilisticModel&, VF&, VF&, VF&, VVF&, VF&)': -Main-RNA.cc:400:13: warning: this 'if' clause does not guard... [-Wmisleading-indentation] +Main.cc: In function 'MultiSequence* DoAlign(MultiSequence*, const ProbabilisticModel&, VF&, VF&, VF&, VVF&, VF&)': +Main.cc:400:13: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 400 | if (enableVerbose) | ^~ -Main-RNA.cc:403:15: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' +Main.cc:403:15: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 403 | delete alignment.first; | ^~~~~~ -Main.cc: In function 'void PrintParameters(const char*, const VF&, const VF&, const VF&, const VVF&, const VF&, const char*)': -Main.cc:282:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] +Main-RNA.cc: In function 'void PrintParameters(const char*, const VF&, const VF&, const VF&, const VVF&, const VF&, const char*)': +Main-RNA.cc:282:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] 282 | for (int i = 0; i < NumMatrixTypes; i++) fprintf (file, "%.10f ", initDistrib[i]); fprintf (file, "\n"); | ^~~ -Main.cc:282:88: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' +Main-RNA.cc:282:88: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' 282 | for (int i = 0; i < NumMatrixTypes; i++) fprintf (file, "%.10f ", initDistrib[i]); fprintf (file, "\n"); | ^~~~~~~ -Main.cc:283:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] +Main-RNA.cc:283:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] 283 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapOpen[i]); fprintf (file, "\n"); | ^~~ -Main.cc:283:87: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' +Main-RNA.cc:283:87: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' 283 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapOpen[i]); fprintf (file, "\n"); | ^~~~~~~ -Main.cc:284:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] +Main-RNA.cc:284:5: warning: this 'for' clause does not guard... [-Wmisleading-indentation] 284 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapExtend[i]); fprintf (file, "\n"); | ^~~ -Main.cc:284:89: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' +Main-RNA.cc:284:89: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'for' 284 | for (int i = 0; i < 2*NumInsertStates; i++) fprintf (file, "%.10f ", gapExtend[i]); fprintf (file, "\n"); | ^~~~~~~ -Main.cc: In function 'MultiSequence* DoAlign(MultiSequence*, const ProbabilisticModel&, VF&, VF&, VF&, VVF&, VF&)': -Main.cc:400:13: warning: this 'if' clause does not guard... [-Wmisleading-indentation] +Main-RNA.cc: In function 'MultiSequence* DoAlign(MultiSequence*, const ProbabilisticModel&, VF&, VF&, VF&, VVF&, VF&)': +Main-RNA.cc:400:13: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 400 | if (enableVerbose) | ^~ -Main.cc:403:15: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' +Main-RNA.cc:403:15: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 403 | delete alignment.first; | ^~~~~~ -Main-RNA.cc: In function 'void ReadParameters()': -Main-RNA.cc:893:40: warning: implicitly-declared 'SafeVector >& SafeVector >::operator=(const SafeVector >&)' is deprecated [-Wdeprecated-copy] +Main.cc: In function 'void ReadParameters()': +Main.cc:893:40: warning: implicitly-declared 'SafeVector >& SafeVector >::operator=(const SafeVector >&)' is deprecated [-Wdeprecated-copy] 893 | emitPairs = VVF (256, VF (256, 1e-10)); | ^ SafeVector.h:29:3: note: because 'SafeVector >' has user-provided 'SafeVector::SafeVector(const SafeVector&) [with TYPE = SafeVector]' 29 | SafeVector (const SafeVector &source) : std::vector(source) {} | ^~~~~~~~~~ -Main-RNA.cc:894:29: warning: implicitly-declared 'SafeVector& SafeVector::operator=(const SafeVector&)' is deprecated [-Wdeprecated-copy] +Main.cc:894:29: warning: implicitly-declared 'SafeVector& SafeVector::operator=(const SafeVector&)' is deprecated [-Wdeprecated-copy] 894 | emitSingle = VF (256, 1e-5); | ^ SafeVector.h:29:3: note: because 'SafeVector' has user-provided 'SafeVector::SafeVector(const SafeVector&) [with TYPE = float]' 29 | SafeVector (const SafeVector &source) : std::vector(source) {} | ^~~~~~~~~~ -Main.cc: In function 'void ReadParameters()': -Main.cc:893:40: warning: implicitly-declared 'SafeVector >& SafeVector >::operator=(const SafeVector >&)' is deprecated [-Wdeprecated-copy] +Main-RNA.cc: In function 'void ReadParameters()': +Main-RNA.cc:893:40: warning: implicitly-declared 'SafeVector >& SafeVector >::operator=(const SafeVector >&)' is deprecated [-Wdeprecated-copy] 893 | emitPairs = VVF (256, VF (256, 1e-10)); | ^ SafeVector.h:29:3: note: because 'SafeVector >' has user-provided 'SafeVector::SafeVector(const SafeVector&) [with TYPE = SafeVector]' 29 | SafeVector (const SafeVector &source) : std::vector(source) {} | ^~~~~~~~~~ -Main.cc:894:29: warning: implicitly-declared 'SafeVector& SafeVector::operator=(const SafeVector&)' is deprecated [-Wdeprecated-copy] +Main-RNA.cc:894:29: warning: implicitly-declared 'SafeVector& SafeVector::operator=(const SafeVector&)' is deprecated [-Wdeprecated-copy] 894 | emitSingle = VF (256, 1e-5); | ^ SafeVector.h:29:3: note: because 'SafeVector' has user-provided 'SafeVector::SafeVector(const SafeVector&) [with TYPE = float]' @@ -474,8 +510,8 @@ dh_builddeb dpkg-deb: building package 'probcons-dbgsym' in '../probcons-dbgsym_1.12-14_amd64.deb'. dpkg-deb: building package 'probcons' in '../probcons_1.12-14_amd64.deb'. -dpkg-deb: building package 'probcons-extra' in '../probcons-extra_1.12-14_amd64.deb'. dpkg-deb: building package 'probcons-extra-dbgsym' in '../probcons-extra-dbgsym_1.12-14_amd64.deb'. +dpkg-deb: building package 'probcons-extra' in '../probcons-extra_1.12-14_amd64.deb'. dpkg-genbuildinfo --build=binary -O../probcons_1.12-14_amd64.buildinfo dpkg-genchanges --build=binary -O../probcons_1.12-14_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -483,12 +519,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/568304/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/568304/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env -I: removing directory /srv/workspace/pbuilder/1733877 and its subdirectories -I: Current time: Tue Aug 5 20:13:32 -12 2025 -I: pbuilder-time-stamp: 1754468012 +I: removing directory /srv/workspace/pbuilder/568304 and its subdirectories +I: Current time: Wed Sep 9 04:38:17 +14 2026 +I: pbuilder-time-stamp: 1788878297 Compressing the 2nd log... /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/amd64/probcons_1.12-14.diff: 80.5% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/amd64/probcons_1.12-14.diff.gz b2/build.log: 79.3% -- replaced with stdout Compressing the 1st log... b1/build.log: 80.4% -- replaced with stdout Wed Aug 6 08:15:19 UTC 2025 I: diffoscope 303 will be used to compare the two builds: ++ date -u +%s + DIFFOSCOPE_STAMP=/var/log/reproducible-builds/diffoscope_stamp_probcons_unstable_amd64_1754468119 + touch /var/log/reproducible-builds/diffoscope_stamp_probcons_unstable_amd64_1754468119 + RESULT=0 + systemd-run '--description=diffoscope on probcons/1.12-14 in unstable/amd64' --slice=rb-build-diffoscope.slice -u rb-diffoscope-amd64_15-67866 '--property=SuccessExitStatus=1 124' --user --send-sighup --pipe --wait -E TMPDIR timeout 155m nice schroot --directory /srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT --run-session -c jenkins-reproducible-unstable-diffoscope-a7e18138-621c-4c46-8a54-cb9eb4784cf3 -- sh -c 'export TMPDIR=/srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT/dbd-tmp-495pyYU ; timeout 150m diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT/probcons_1.12-14.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT/probcons_1.12-14.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT/probcons_1.12-14.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT/b1/probcons_1.12-14_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT/b2/probcons_1.12-14_amd64.changes' + false + set +x Running as unit: rb-diffoscope-amd64_15-67866.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT/probcons_1.12-14.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT/probcons_1.12-14.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT/probcons_1.12-14.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT/b1/probcons_1.12-14_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.adYF5aPT/b2/probcons_1.12-14_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 Service runtime: 185ms CPU time consumed: 163ms _ _ __ _ __ ___ | |__ ___ ___ _ __ ___ | '_ \| '__/ _ \| '_ \ / __/ _ \| '_ \/ __| | |_) | | | (_) | |_) | (_| (_) | | | \__ \ | .__/|_| \___/|_.__/ \___\___/|_| |_|___/ |_| Wed Aug 6 08:15:20 UTC 2025 I: diffoscope 303 found no differences in the changes files, and a .buildinfo file also exists. Wed Aug 6 08:15:20 UTC 2025 I: probcons from unstable built successfully and reproducibly on amd64. INSERT 0 1 INSERT 0 1 DELETE 1 [2025-08-06 08:15:20] INFO: Starting at 2025-08-06 08:15:20.753118 [2025-08-06 08:15:20] INFO: Generating the pages of 1 package(s) [2025-08-06 08:15:20] CRITICAL: https://tests.reproducible-builds.org/debian/unstable/amd64/probcons didn't produce a buildlog, even though it has been built. [2025-08-06 08:15:20] INFO: Finished at 2025-08-06 08:15:20.983472, took: 0:00:00.230357 Wed Aug 6 08:15:21 UTC 2025 - successfully updated the database and updated https://tests.reproducible-builds.org/debian/rb-pkg/unstable/amd64/probcons.html Wed Aug 6 08:15:21 UTC 2025 I: Removing signed probcons_1.12-14_amd64.buildinfo.asc files: removed './b1/probcons_1.12-14_amd64.buildinfo.asc' removed './b2/probcons_1.12-14_amd64.buildinfo.asc' 1754468121 amd64 unstable probcons Starting cleanup. /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/probcons_1.12-14.rbuild.log: 76.3% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/probcons_1.12-14.rbuild.log.gz [2025-08-06 08:15:21] INFO: Starting at 2025-08-06 08:15:21.253948 [2025-08-06 08:15:21] INFO: Generating the pages of 1 package(s) [2025-08-06 08:15:21] INFO: Finished at 2025-08-06 08:15:21.468659, took: 0:00:00.214713 All cleanup done. Wed Aug 6 08:15:21 UTC 2025 - total duration: 0h 3m 11s. Wed Aug 6 08:15:21 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-tPJc05y0, removing. Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 3min 12.489s CPU time consumed: 4.486s