Running as unit: rb-build-amd64_33-50540.service ==================================================================================== Sat Feb 22 08:55:48 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job reproducible_builder_amd64_33) on jenkins, called using "infom01-amd64 infom02-amd64" as arguments. Sat Feb 22 08:55:48 UTC 2025 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-EbW5hH5T" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Sat Feb 22 08:55:48 UTC 2025 - checking /var/lib/jenkins/offline_nodes if infom01-amd64.debian.net is marked as down. Sat Feb 22 08:55:48 UTC 2025 - checking via ssh if infom01-amd64.debian.net is up. removed '/tmp/read-only-fs-test-DyKZsl' Sat Feb 22 08:55:48 UTC 2025 - checking /var/lib/jenkins/offline_nodes if infom02-amd64.debian.net is marked as down. Sat Feb 22 08:55:48 UTC 2025 - checking via ssh if infom02-amd64.debian.net is up. removed '/tmp/read-only-fs-test-IvTnD0' ok, let's check if physamp is building anywhere yet… ok, physamp is not building anywhere… UPDATE 1 ============================================================================= Initialising reproducibly build of physamp in trixie on amd64 on jenkins now. 1st build will be done on infom01-amd64.debian.net. 2nd build will be done on infom02-amd64.debian.net. ============================================================================= Sat Feb 22 08:56:11 UTC 2025 I: starting to build physamp/trixie/amd64 on jenkins on '2025-02-22 08:55' Sat Feb 22 08:56:11 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_33/50540/console.log 1740214571 amd64 trixie physamp Sat Feb 22 08:56:11 UTC 2025 I: Downloading source for trixie/physamp=1.1.0-5 --2025-02-22 08:56:11-- http://deb.debian.org/debian/pool/main/p/physamp/physamp_1.1.0-5.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2001 (2.0K) [text/prs.lines.tag] Saving to: ‘physamp_1.1.0-5.dsc’ 0K . 100% 303M=0s 2025-02-22 08:56:11 (303 MB/s) - ‘physamp_1.1.0-5.dsc’ saved [2001/2001] --2025-02-22 08:56:11-- http://deb.debian.org/debian/pool/main/p/physamp/physamp_1.1.0-5.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2001 (2.0K) [text/prs.lines.tag] Saving to: ‘physamp_1.1.0-5.dsc’ 0K . 100% 303M=0s 2025-02-22 08:56:11 (303 MB/s) - ‘physamp_1.1.0-5.dsc’ saved [2001/2001] Sat Feb 22 08:56:11 UTC 2025 I: physamp_1.1.0-5.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: physamp Binary: physamp Architecture: any Version: 1.1.0-5 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Julien Dutheil Homepage: https://jydu.github.io/physamp/ Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/physamp Vcs-Git: https://salsa.debian.org/med-team/physamp.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), cmake, texinfo, libbpp-phyl-dev Package-List: physamp deb science optional arch=any Checksums-Sha1: 3ff8524b2bcf0be31ff60857253cdabce2677b90 241845 physamp_1.1.0.orig.tar.gz 9e2d2e5a6f4f5fba98c5faa5da7b6690b948456f 3924 physamp_1.1.0-5.debian.tar.xz Checksums-Sha256: 0c687e7f46d6d5732a3ad6f029a0169667921101294a9fb5efaae9adfc397ae8 241845 physamp_1.1.0.orig.tar.gz 72f3d5405dce25cd5e95eeb62495d26c9f9d373c2252abb0e689e62607cfa630 3924 physamp_1.1.0-5.debian.tar.xz Files: 70c3d25a3ab2c937495c502a4dbddcdd 241845 physamp_1.1.0.orig.tar.gz 148c4f13409444bd89a47093b4659167 3924 physamp_1.1.0-5.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEck1gkzcRPHEFUNdHPCZ2P2xn5uIFAmYBu6kACgkQPCZ2P2xn 5uKLvQ//QFnxHc29lid3rkaM1hrEslQY2ecaKc/a107DYYwNACx3kzXU9V2h+92F mOL0ov9LxIDHPqaJ8L32AAgUPRX3UgGGrXO3xGLWTo6YvmQE9SmiZSQijNpB2u4q bD0O+YEQg0v/3YvDDlb1t1dse8wBmtuJN8j+4QlnEmCWwua+JMHdnYXGvDLpwx+4 1Deu6VkjaPWqwcqjotj7X4sCw7FrooICbXuz0oRUXm6zOOtWp2HbY8OBHGShmxx8 Cq9TIKMK8eX4Py+wJDMRlG8UE7UHrsIUQDhQis2G58lMmGuQpLqnpnoXHe4hFeJG diiFN1R4+iz/8uh+v9EhmJS2Txav/uy4zhW2OO35EkURg+PBpKpAic08oGKh+hAV WQTWh1GO0NG6JBNOhqCp+Agdi6sMCzAfj0OR8OkdpxLTDC4KdtL6OjJjeE8ekAbP 72ffz63TQ4IWWKPXALarrrcSALdhljoqAsYJ+lJojuZa/JHzakSHtV27xYxDS4ym LSnBr87UDwaSajwnhjXyfk6xV22AOTlHekLn5UQHuaLMHbIS8EJxCWD22OpT7kMa RBfr6RO3c4KtivXPOrP39/GuaKvOWz6u4AVNAM79LjM0EJ6RetYh0OO0UqX1TtXR yHpRXK0TTYEoCtDYT51nJGKiAjR3iquOY6jgpRheCBw4SYFL954= =00XP -----END PGP SIGNATURE----- Sat Feb 22 08:56:11 UTC 2025 I: Checking whether the package is not for us Sat Feb 22 08:56:11 UTC 2025 I: Starting 1st build on remote node infom01-amd64.debian.net. Sat Feb 22 08:56:11 UTC 2025 I: Preparing to do remote build '1' on infom01-amd64.debian.net. Sat Feb 22 08:56:11 UTC 2025 - checking /var/lib/jenkins/offline_nodes if infom01-amd64.debian.net is marked as down. Sat Feb 22 08:56:11 UTC 2025 - checking via ssh if infom01-amd64.debian.net is up. removed '/tmp/read-only-fs-test-ypnbkS' ==================================================================================== Sat Feb 22 08:56:12 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on infom01-amd64, called using "1 physamp trixie /srv/reproducible-results/rbuild-debian/r-b-build.jDbhUzfq 1.1.0-5" as arguments. Sat Feb 22 08:56:12 UTC 2025 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-8a1eoMhA" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Sat Feb 22 08:56:12 UTC 2025 I: Downloading source for trixie/physamp=1.1.0-5 Reading package lists... NOTICE: 'physamp' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/physamp.git Please use: git clone https://salsa.debian.org/med-team/physamp.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 248 kB of source archives. Get:1 http://deb.debian.org/debian trixie/main physamp 1.1.0-5 (dsc) [2001 B] Get:2 http://deb.debian.org/debian trixie/main physamp 1.1.0-5 (tar) [242 kB] Get:3 http://deb.debian.org/debian trixie/main physamp 1.1.0-5 (diff) [3924 B] Fetched 248 kB in 0s (1180 kB/s) Download complete and in download only mode Reading package lists... NOTICE: 'physamp' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/physamp.git Please use: git clone https://salsa.debian.org/med-team/physamp.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 248 kB of source archives. Get:1 http://deb.debian.org/debian trixie/main physamp 1.1.0-5 (dsc) [2001 B] Get:2 http://deb.debian.org/debian trixie/main physamp 1.1.0-5 (tar) [242 kB] Get:3 http://deb.debian.org/debian trixie/main physamp 1.1.0-5 (diff) [3924 B] Fetched 248 kB in 0s (1180 kB/s) Download complete and in download only mode ============================================================================= Building physamp in trixie on amd64 on infom01-amd64 now. Date: Sat Feb 22 08:56:13 UTC 2025 Date UTC: Sat Feb 22 08:56:13 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: Fri Feb 21 20:56:13 -12 2025 I: pbuilder-time-stamp: 1740214573 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [physamp_1.1.0-5.dsc] I: copying [./physamp_1.1.0.orig.tar.gz] I: copying [./physamp_1.1.0-5.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./physamp_1.1.0-5.dsc: unsupported subcommand dpkg-source: info: extracting physamp in physamp-1.1.0 dpkg-source: info: unpacking physamp_1.1.0.orig.tar.gz dpkg-source: info: unpacking physamp_1.1.0-5.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying unforce-cxxflags.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2435468/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='6c3bd51d98a849a5b5b34ceae6fed651' 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='2435468' 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.jDbhUzfq/pbuilderrc_0r4m --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.jDbhUzfq/b1 --logfile b1/build.log physamp_1.1.0-5.dsc' SUDO_GID='109' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' I: uname -a Linux infom01-amd64 6.1.0-31-cloud-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.128-1 (2025-02-07) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin I: user script /srv/workspace/pbuilder/2435468/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), cmake, texinfo, libbpp-phyl-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19858 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on texinfo; however: Package texinfo is not installed. pbuilder-satisfydepends-dummy depends on libbpp-phyl-dev; however: Package libbpp-phyl-dev 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} cmake{a} cmake-data{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} libarchive13t64{a} libbpp-core-dev{a} libbpp-core4t64{a} libbpp-phyl-dev{a} libbpp-phyl12t64{a} libbpp-seq-dev{a} libbpp-seq12t64{a} libbrotli1{a} libcom-err2{a} libcurl4t64{a} libdebhelper-perl{a} libelf1t64{a} libexpat1{a} libffi8{a} libfile-stripnondeterminism-perl{a} libgnutls30t64{a} libgssapi-krb5-2{a} libicu72{a} libidn2-0{a} libjsoncpp26{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap2{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp3-9{a} libp11-kit0{a} libpipeline1{a} libproc2-0{a} libpsl5t64{a} librhash1{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1t64{a} libtasn1-6{a} libtext-charwidth-perl{a} libtext-unidecode-perl{a} libtext-wrapi18n-perl{a} libtool{a} libuchardet0{a} libunistring5{a} libuv1t64{a} libxml-libxml-perl{a} libxml-namespacesupport-perl{a} libxml-sax-base-perl{a} libxml-sax-perl{a} libxml2{a} m4{a} man-db{a} po-debconf{a} procps{a} sensible-utils{a} tex-common{a} texinfo{a} texinfo-lib{a} ucf{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl krb5-locales libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules libwww-perl libxml-sax-expat-perl linux-sysctl-defaults lynx psmisc publicsuffix wget 0 packages upgraded, 77 newly installed, 0 to remove and 0 not upgraded. Need to get 50.8 MB of archives. After unpacking 233 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main amd64 libproc2-0 amd64 2:4.0.4-7 [64.9 kB] Get: 2 http://deb.debian.org/debian trixie/main amd64 procps amd64 2:4.0.4-7 [878 kB] Get: 3 http://deb.debian.org/debian trixie/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 4 http://deb.debian.org/debian trixie/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 5 http://deb.debian.org/debian trixie/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 6 http://deb.debian.org/debian trixie/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 7 http://deb.debian.org/debian trixie/main amd64 gettext-base amd64 0.23.1-1 [243 kB] Get: 8 http://deb.debian.org/debian trixie/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 9 http://deb.debian.org/debian trixie/main amd64 groff-base amd64 1.23.0-7 [1185 kB] Get: 10 http://deb.debian.org/debian trixie/main amd64 bsdextrautils amd64 2.40.4-3 [92.1 kB] Get: 11 http://deb.debian.org/debian trixie/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 12 http://deb.debian.org/debian trixie/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 13 http://deb.debian.org/debian trixie/main amd64 libtext-charwidth-perl amd64 0.04-11+b4 [9476 B] Get: 14 http://deb.debian.org/debian trixie/main amd64 libtext-wrapi18n-perl all 0.06-10 [8808 B] Get: 15 http://deb.debian.org/debian trixie/main amd64 ucf all 3.0049 [42.5 kB] Get: 16 http://deb.debian.org/debian trixie/main amd64 m4 amd64 1.4.19-5 [294 kB] Get: 17 http://deb.debian.org/debian trixie/main amd64 autoconf all 2.72-3 [493 kB] Get: 18 http://deb.debian.org/debian trixie/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 19 http://deb.debian.org/debian trixie/main amd64 automake all 1:1.17-3 [862 kB] Get: 20 http://deb.debian.org/debian trixie/main amd64 autopoint all 0.23.1-1 [770 kB] Get: 21 http://deb.debian.org/debian trixie/main amd64 cmake-data all 3.31.5-2 [2267 kB] Get: 22 http://deb.debian.org/debian trixie/main amd64 libicu72 amd64 72.1-6 [9421 kB] Get: 23 http://deb.debian.org/debian trixie/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [699 kB] Get: 24 http://deb.debian.org/debian trixie/main amd64 libarchive13t64 amd64 3.7.4-1.1 [349 kB] Get: 25 http://deb.debian.org/debian trixie/main amd64 libbrotli1 amd64 1.1.0-2+b6 [302 kB] Get: 26 http://deb.debian.org/debian trixie/main amd64 libkrb5support0 amd64 1.21.3-4 [32.8 kB] Get: 27 http://deb.debian.org/debian trixie/main amd64 libcom-err2 amd64 1.47.2-1 [24.0 kB] Get: 28 http://deb.debian.org/debian trixie/main amd64 libk5crypto3 amd64 1.21.3-4 [80.9 kB] Get: 29 http://deb.debian.org/debian trixie/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B] Get: 30 http://deb.debian.org/debian trixie/main amd64 libkrb5-3 amd64 1.21.3-4 [326 kB] Get: 31 http://deb.debian.org/debian trixie/main amd64 libgssapi-krb5-2 amd64 1.21.3-4 [138 kB] Get: 32 http://deb.debian.org/debian trixie/main amd64 libunistring5 amd64 1.3-1 [476 kB] Get: 33 http://deb.debian.org/debian trixie/main amd64 libidn2-0 amd64 2.3.7-2+b1 [129 kB] Get: 34 http://deb.debian.org/debian trixie/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-8+b1 [19.9 kB] Get: 35 http://deb.debian.org/debian trixie/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-8+b1 [57.6 kB] Get: 36 http://deb.debian.org/debian trixie/main amd64 libldap2 amd64 2.6.9+dfsg-1 [192 kB] Get: 37 http://deb.debian.org/debian trixie/main amd64 libnghttp2-14 amd64 1.64.0-1 [75.5 kB] Get: 38 http://deb.debian.org/debian trixie/main amd64 libnghttp3-9 amd64 1.6.0-2 [64.8 kB] Get: 39 http://deb.debian.org/debian trixie/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 40 http://deb.debian.org/debian trixie/main amd64 libffi8 amd64 3.4.7-1 [23.9 kB] Get: 41 http://deb.debian.org/debian trixie/main amd64 libp11-kit0 amd64 0.25.5-3 [425 kB] Get: 42 http://deb.debian.org/debian trixie/main amd64 libtasn1-6 amd64 4.20.0-2 [49.9 kB] Get: 43 http://deb.debian.org/debian trixie/main amd64 libgnutls30t64 amd64 3.8.9-2 [1464 kB] Get: 44 http://deb.debian.org/debian trixie/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB] Get: 45 http://deb.debian.org/debian trixie/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 46 http://deb.debian.org/debian trixie/main amd64 libcurl4t64 amd64 8.12.1-2 [369 kB] Get: 47 http://deb.debian.org/debian trixie/main amd64 libexpat1 amd64 2.6.4-1 [106 kB] Get: 48 http://deb.debian.org/debian trixie/main amd64 libjsoncpp26 amd64 1.9.6-3 [81.7 kB] Get: 49 http://deb.debian.org/debian trixie/main amd64 librhash1 amd64 1.4.5-1 [132 kB] Get: 50 http://deb.debian.org/debian trixie/main amd64 libuv1t64 amd64 1.50.0-2 [154 kB] Get: 51 http://deb.debian.org/debian trixie/main amd64 cmake amd64 3.31.5-2 [12.0 MB] Get: 52 http://deb.debian.org/debian trixie/main amd64 libdebhelper-perl all 13.24.1 [90.9 kB] Get: 53 http://deb.debian.org/debian trixie/main amd64 libtool all 2.5.4-3 [539 kB] Get: 54 http://deb.debian.org/debian trixie/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 55 http://deb.debian.org/debian trixie/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 56 http://deb.debian.org/debian trixie/main amd64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 57 http://deb.debian.org/debian trixie/main amd64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 58 http://deb.debian.org/debian trixie/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 59 http://deb.debian.org/debian trixie/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 60 http://deb.debian.org/debian trixie/main amd64 gettext amd64 0.23.1-1 [1680 kB] Get: 61 http://deb.debian.org/debian trixie/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 62 http://deb.debian.org/debian trixie/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 63 http://deb.debian.org/debian trixie/main amd64 debhelper all 13.24.1 [920 kB] Get: 64 http://deb.debian.org/debian trixie/main amd64 libbpp-core4t64 amd64 2.4.1-13+b1 [629 kB] Get: 65 http://deb.debian.org/debian trixie/main amd64 libbpp-core-dev amd64 2.4.1-13+b1 [967 kB] Get: 66 http://deb.debian.org/debian trixie/main amd64 libbpp-seq12t64 amd64 2.4.1-13 [510 kB] Get: 67 http://deb.debian.org/debian trixie/main amd64 libbpp-phyl12t64 amd64 2.4.1-11+b2 [1711 kB] Get: 68 http://deb.debian.org/debian trixie/main amd64 libbpp-seq-dev amd64 2.4.1-13 [745 kB] Get: 69 http://deb.debian.org/debian trixie/main amd64 libbpp-phyl-dev amd64 2.4.1-11+b2 [2997 kB] Get: 70 http://deb.debian.org/debian trixie/main amd64 libtext-unidecode-perl all 1.30-3 [101 kB] Get: 71 http://deb.debian.org/debian trixie/main amd64 libxml-namespacesupport-perl all 1.12-2 [15.1 kB] Get: 72 http://deb.debian.org/debian trixie/main amd64 libxml-sax-base-perl all 1.09-3 [20.6 kB] Get: 73 http://deb.debian.org/debian trixie/main amd64 libxml-sax-perl all 1.02+dfsg-4 [53.4 kB] Get: 74 http://deb.debian.org/debian trixie/main amd64 libxml-libxml-perl amd64 2.0207+dfsg+really+2.0134-5+b2 [314 kB] Get: 75 http://deb.debian.org/debian trixie/main amd64 tex-common all 6.18 [32.5 kB] Get: 76 http://deb.debian.org/debian trixie/main amd64 texinfo-lib amd64 7.1.1-1+b1 [232 kB] Get: 77 http://deb.debian.org/debian trixie/main amd64 texinfo all 7.1.1-1 [1753 kB] Fetched 50.8 MB in 2s (30.7 MB/s) Preconfiguring packages ... Selecting previously unselected package libproc2-0:amd64. (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 ... 19858 files and directories currently installed.) Preparing to unpack .../00-libproc2-0_2%3a4.0.4-7_amd64.deb ... Unpacking libproc2-0:amd64 (2:4.0.4-7) ... Selecting previously unselected package procps. Preparing to unpack .../01-procps_2%3a4.0.4-7_amd64.deb ... Unpacking procps (2:4.0.4-7) ... Selecting previously unselected package sensible-utils. 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Preparing to unpack .../73-libxml-libxml-perl_2.0207+dfsg+really+2.0134-5+b2_amd64.deb ... Unpacking libxml-libxml-perl (2.0207+dfsg+really+2.0134-5+b2) ... Selecting previously unselected package tex-common. Preparing to unpack .../74-tex-common_6.18_all.deb ... Unpacking tex-common (6.18) ... Selecting previously unselected package texinfo-lib. Preparing to unpack .../75-texinfo-lib_7.1.1-1+b1_amd64.deb ... Unpacking texinfo-lib (7.1.1-1+b1) ... Selecting previously unselected package texinfo. Preparing to unpack .../76-texinfo_7.1.1-1_all.deb ... Unpacking texinfo (7.1.1-1) ... Setting up libexpat1:amd64 (2.6.4-1) ... Setting up libpipeline1:amd64 (1.5.8-1) ... Setting up libtext-charwidth-perl:amd64 (0.04-11+b4) ... Setting up libkeyutils1:amd64 (1.6.3-4) ... Setting up libicu72:amd64 (72.1-6) ... Setting up bsdextrautils (2.40.4-3) ... Setting up libmagic-mgc (1:5.45-3+b1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libbpp-core4t64:amd64 (2.4.1-13+b1) ... Setting up libdebhelper-perl (13.24.1) ... Setting up libbrotli1:amd64 (1.1.0-2+b6) ... Setting up libuv1t64:amd64 (1.50.0-2) ... Setting up libmagic1t64:amd64 (1:5.45-3+b1) ... Setting up libnghttp2-14:amd64 (1.64.0-1) ... Setting up libxml-namespacesupport-perl (1.12-2) ... Setting up gettext-base (0.23.1-1) ... Setting up m4 (1.4.19-5) ... Setting up libcom-err2:amd64 (1.47.2-1) ... Setting up file (1:5.45-3+b1) ... Setting up texinfo-lib (7.1.1-1+b1) ... Setting up libtext-wrapi18n-perl (0.06-10) ... Setting up libelf1t64:amd64 (0.192-4) ... Setting up libkrb5support0:amd64 (1.21.3-4) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-8+b1) ... Setting up libbpp-core-dev:amd64 (2.4.1-13+b1) ... Setting up libxml-sax-base-perl (1.09-3) ... Setting up autotools-dev (20220109.1) ... Setting up libjsoncpp26:amd64 (1.9.6-3) ... Setting up libproc2-0:amd64 (2:4.0.4-7) ... Setting up libunistring5:amd64 (1.3-1) ... Setting up autopoint (0.23.1-1) ... Setting up libk5crypto3:amd64 (1.21.3-4) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-8+b1) ... Setting up autoconf (2.72-3) ... Setting up libnghttp3-9:amd64 (1.6.0-2) ... Setting up libffi8:amd64 (3.4.7-1) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libuchardet0:amd64 (0.0.8-1+b2) ... Setting up procps (2:4.0.4-7) ... Setting up libtasn1-6:amd64 (4.20.0-2) ... Setting up cmake-data (3.31.5-2) ... Setting up librhash1:amd64 (1.4.5-1) ... Setting up libkrb5-3:amd64 (1.21.3-4) ... Setting up libssh2-1t64:amd64 (1.11.1-1) ... Setting up libtext-unidecode-perl (1.30-3) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up libldap2:amd64 (2.6.9+dfsg-1) ... Setting up libbpp-seq12t64:amd64 (2.4.1-13) ... Setting up automake (1:1.17-3) ... 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 libbpp-seq-dev:amd64 (2.4.1-13) ... Setting up gettext (0.23.1-1) ... Setting up libtool (2.5.4-3) ... Setting up libbpp-phyl12t64:amd64 (2.4.1-11+b2) ... Setting up libidn2-0:amd64 (2.3.7-2+b1) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libbpp-phyl-dev:amd64 (2.4.1-11+b2) ... Setting up libp11-kit0:amd64 (0.25.5-3) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-4) ... Setting up ucf (3.0049) ... Setting up dh-strip-nondeterminism (1.14.1-2) ... Setting up groff-base (1.23.0-7) ... Setting up libarchive13t64:amd64 (3.7.4-1.1) ... Setting up libgnutls30t64:amd64 (3.8.9-2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpsl5t64:amd64 (0.21.2-1.1+b1) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libxml-sax-perl (1.02+dfsg-4) ... update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::PurePerl with priority 10... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up tex-common (6.18) ... update-language: texlive-base not installed and configured, doing nothing! Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libxml-libxml-perl (2.0207+dfsg+really+2.0134-5+b2) ... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libcurl4t64:amd64 (8.12.1-2) ... Setting up debhelper (13.24.1) ... Setting up texinfo (7.1.1-1) ... Setting up cmake (3.31.5-2) ... Processing triggers for libc-bin (2.40-7) ... 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/physamp-1.1.0/ && 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 > ../physamp_1.1.0-5_source.changes dpkg-buildpackage: info: source package physamp dpkg-buildpackage: info: source version 1.1.0-5 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Michael R. Crusoe dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure cd obj-x86_64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu .. CMake Deprecation Warning at CMakeLists.txt:6 (CMAKE_MINIMUM_REQUIRED): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- The CXX compiler identification is GNU 14.2.0 -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Found /usr/bin/gzip compression program, using file extension .gz -- bpp-core 4.1.0 found: -- static lib: /usr/lib/x86_64-linux-gnu/libbpp-core.a -- shared lib: /usr/lib/x86_64-linux-gnu/libbpp-core.so.4.1.0 -- includes: /usr/include -- bpp-seq 12.0.0 found: -- static lib: /usr/lib/x86_64-linux-gnu/libbpp-seq.a -- shared lib: /usr/lib/x86_64-linux-gnu/libbpp-seq.so.12.0.0 -- includes: /usr/include -- bpp-phyl 12.0.0 found: -- static lib: /usr/lib/x86_64-linux-gnu/libbpp-phyl.a -- shared lib: /usr/lib/x86_64-linux-gnu/libbpp-phyl.so.12.0.0 -- includes: /usr/include -- Found makeinfo as '/usr/bin/makeinfo': 'info' and 'html' target enabled (builds info/html doc) -- Found texi2dvi: 'pdf' target enabled (builds pdf doc) -- Configuring done (0.5s) -- Generating done (0.0s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu dh_auto_build cd obj-x86_64-linux-gnu && make -j12 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/physamp-1.1.0 -B/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make -f physamp/CMakeFiles/bppalnoptim.dir/build.make physamp/CMakeFiles/bppalnoptim.dir/depend make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make -f physamp/CMakeFiles/bppphysamp.dir/build.make physamp/CMakeFiles/bppphysamp.dir/depend cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/physamp-1.1.0 /build/reproducible-path/physamp-1.1.0/physamp /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/physamp /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/physamp/CMakeFiles/bppalnoptim.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make -f docs/CMakeFiles/info.dir/build.make docs/CMakeFiles/info.dir/depend cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/physamp-1.1.0 /build/reproducible-path/physamp-1.1.0/physamp /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/physamp /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/physamp/CMakeFiles/bppphysamp.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make -f man/CMakeFiles/man.dir/build.make man/CMakeFiles/man.dir/depend cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/physamp-1.1.0 /build/reproducible-path/physamp-1.1.0/docs /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/docs /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/docs/CMakeFiles/info.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/physamp-1.1.0 /build/reproducible-path/physamp-1.1.0/man /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/man /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/man/CMakeFiles/man.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make -f man/CMakeFiles/man.dir/build.make man/CMakeFiles/man.dir/build make[3]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make -f physamp/CMakeFiles/bppalnoptim.dir/build.make physamp/CMakeFiles/bppalnoptim.dir/build make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make -f physamp/CMakeFiles/bppphysamp.dir/build.make physamp/CMakeFiles/bppphysamp.dir/build make[3]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make -f docs/CMakeFiles/info.dir/build.make docs/CMakeFiles/info.dir/build make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' [ 12%] Generating info page cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/docs && /usr/bin/makeinfo --no-split -o /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/docs/physamp.info /build/reproducible-path/physamp-1.1.0/docs/physamp.texi [ 25%] Compressing manpage bppalnoptim.1 cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/man && /usr/bin/gzip -c9n /build/reproducible-path/physamp-1.1.0/man/bppalnoptim.1 > /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/man/bppalnoptim.1.gz [ 37%] Building CXX object physamp/CMakeFiles/bppphysamp.dir/PhyloSampler.cpp.o [ 50%] Building CXX object physamp/CMakeFiles/bppalnoptim.dir/AlignmentOptimizer.cpp.o cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/physamp && /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/physamp-1.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT physamp/CMakeFiles/bppalnoptim.dir/AlignmentOptimizer.cpp.o -MF CMakeFiles/bppalnoptim.dir/AlignmentOptimizer.cpp.o.d -o CMakeFiles/bppalnoptim.dir/AlignmentOptimizer.cpp.o -c /build/reproducible-path/physamp-1.1.0/physamp/AlignmentOptimizer.cpp cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/physamp && /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/physamp-1.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT physamp/CMakeFiles/bppphysamp.dir/PhyloSampler.cpp.o -MF CMakeFiles/bppphysamp.dir/PhyloSampler.cpp.o.d -o CMakeFiles/bppphysamp.dir/PhyloSampler.cpp.o -c /build/reproducible-path/physamp-1.1.0/physamp/PhyloSampler.cpp [ 62%] Compressing manpage bppphysamp.1 cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/man && /usr/bin/gzip -c9n /build/reproducible-path/physamp-1.1.0/man/bppphysamp.1 > /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/man/bppphysamp.1.gz make[3]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' [ 62%] Built target man [ 75%] Compressing info page cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/docs && /usr/bin/gzip -c9n /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/docs/physamp.info > /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/docs/physamp.info.gz make[3]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' [ 75%] Built target info /build/reproducible-path/physamp-1.1.0/physamp/AlignmentOptimizer.cpp: In function 'int main(int, char**)': /build/reproducible-path/physamp-1.1.0/physamp/AlignmentOptimizer.cpp:444:13: warning: catching polymorphic type 'class bpp::SequenceNotFoundException' by value [-Wcatch-value=] 444 | } catch(SequenceNotFoundException) { | ^~~~~~~~~~~~~~~~~~~~~~~~~ [ 87%] Linking CXX executable bppphysamp cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/physamp && /usr/bin/cmake -E cmake_link_script CMakeFiles/bppphysamp.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/physamp-1.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic -Wl,--dependency-file=CMakeFiles/bppphysamp.dir/link.d CMakeFiles/bppphysamp.dir/PhyloSampler.cpp.o -o bppphysamp /usr/lib/x86_64-linux-gnu/libbpp-phyl.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-seq.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-core.so.4.1.0 make[3]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' [ 87%] Built target bppphysamp [100%] Linking CXX executable bppalnoptim cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/physamp && /usr/bin/cmake -E cmake_link_script CMakeFiles/bppalnoptim.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/physamp-1.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic -Wl,--dependency-file=CMakeFiles/bppalnoptim.dir/link.d CMakeFiles/bppalnoptim.dir/AlignmentOptimizer.cpp.o -o bppalnoptim /usr/lib/x86_64-linux-gnu/libbpp-phyl.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-seq.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-core.so.4.1.0 make[3]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' [100%] Built target bppalnoptim make[2]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/physamp/ cd obj-x86_64-linux-gnu && make -j12 install DESTDIR=/build/reproducible-path/physamp-1.1.0/debian/physamp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/physamp-1.1.0 -B/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/reproducible-path/physamp-1.1.0/debian/physamp/usr/bin/bppalnoptim -- Installing: /build/reproducible-path/physamp-1.1.0/debian/physamp/usr/bin/bppphysamp -- Installing: /build/reproducible-path/physamp-1.1.0/debian/physamp/usr/share/info/physamp.info.gz -- Installing: /build/reproducible-path/physamp-1.1.0/debian/physamp/usr/share/man/man1/bppalnoptim.1.gz -- Installing: /build/reproducible-path/physamp-1.1.0/debian/physamp/usr/share/man/man1/bppphysamp.1.gz make[1]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' dh_installdocs dh_installchangelogs dh_installexamples dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'physamp' in '../physamp_1.1.0-5_amd64.deb'. dpkg-deb: building package 'physamp-dbgsym' in '../physamp-dbgsym_1.1.0-5_amd64.deb'. dpkg-genbuildinfo --build=binary -O../physamp_1.1.0-5_amd64.buildinfo dpkg-genchanges --build=binary -O../physamp_1.1.0-5_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/2435468 and its subdirectories I: Current time: Fri Feb 21 20:58:15 -12 2025 I: pbuilder-time-stamp: 1740214695 Sat Feb 22 08:58:15 UTC 2025 I: Signing ./b1/physamp_1.1.0-5_amd64.buildinfo as physamp_1.1.0-5_amd64.buildinfo.asc Sat Feb 22 08:58:15 UTC 2025 I: Signed ./b1/physamp_1.1.0-5_amd64.buildinfo as ./b1/physamp_1.1.0-5_amd64.buildinfo.asc Sat Feb 22 08:58:15 UTC 2025 - build #1 for physamp/trixie/amd64 on infom01-amd64 done. Starting cleanup. All cleanup done. Sat Feb 22 08:58:15 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-8a1eoMhA, removing. /srv/reproducible-results/rbuild-debian/r-b-build.jDbhUzfq: total 16 drwxr-xr-x 2 jenkins jenkins 4096 Feb 22 08:58 b1 drwxr-xr-x 2 jenkins jenkins 4096 Feb 22 08:56 b2 -rw-r--r-- 1 jenkins jenkins 2001 Mar 26 2024 physamp_1.1.0-5.dsc -rw------- 1 jenkins jenkins 3099 Feb 22 08:56 rbuildlog.Em7pmvl /srv/reproducible-results/rbuild-debian/r-b-build.jDbhUzfq/b1: total 1548 -rw-r--r-- 1 jenkins jenkins 46764 Feb 22 08:58 build.log -rw-r--r-- 1 jenkins jenkins 1311260 Feb 22 08:58 physamp-dbgsym_1.1.0-5_amd64.deb -rw-r--r-- 1 jenkins jenkins 3924 Feb 22 08:58 physamp_1.1.0-5.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2001 Feb 22 08:58 physamp_1.1.0-5.dsc -rw-r--r-- 1 jenkins jenkins 6433 Feb 22 08:58 physamp_1.1.0-5_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 7315 Feb 22 08:58 physamp_1.1.0-5_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1521 Feb 22 08:58 physamp_1.1.0-5_amd64.changes -rw-r--r-- 1 jenkins jenkins 188016 Feb 22 08:58 physamp_1.1.0-5_amd64.deb -rw-r--r-- 1 jenkins jenkins 1371 Feb 22 08:58 physamp_1.1.0-5_source.changes /srv/reproducible-results/rbuild-debian/r-b-build.jDbhUzfq/b2: total 0 Sat Feb 22 08:58:16 UTC 2025 I: Deleting $TMPDIR on infom01-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Fri Feb 21 20:56:13 -12 2025 I: pbuilder-time-stamp: 1740214573 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [physamp_1.1.0-5.dsc] I: copying [./physamp_1.1.0.orig.tar.gz] I: copying [./physamp_1.1.0-5.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./physamp_1.1.0-5.dsc: unsupported subcommand dpkg-source: info: extracting physamp in physamp-1.1.0 dpkg-source: info: unpacking physamp_1.1.0.orig.tar.gz dpkg-source: info: unpacking physamp_1.1.0-5.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying unforce-cxxflags.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2435468/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='6c3bd51d98a849a5b5b34ceae6fed651' 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='2435468' 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.jDbhUzfq/pbuilderrc_0r4m --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.jDbhUzfq/b1 --logfile b1/build.log physamp_1.1.0-5.dsc' SUDO_GID='109' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' I: uname -a Linux infom01-amd64 6.1.0-31-cloud-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.128-1 (2025-02-07) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin I: user script /srv/workspace/pbuilder/2435468/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), cmake, texinfo, libbpp-phyl-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19858 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on texinfo; however: Package texinfo is not installed. pbuilder-satisfydepends-dummy depends on libbpp-phyl-dev; however: Package libbpp-phyl-dev 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} cmake{a} cmake-data{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} libarchive13t64{a} libbpp-core-dev{a} libbpp-core4t64{a} libbpp-phyl-dev{a} libbpp-phyl12t64{a} libbpp-seq-dev{a} libbpp-seq12t64{a} libbrotli1{a} libcom-err2{a} libcurl4t64{a} libdebhelper-perl{a} libelf1t64{a} libexpat1{a} libffi8{a} libfile-stripnondeterminism-perl{a} libgnutls30t64{a} libgssapi-krb5-2{a} libicu72{a} libidn2-0{a} libjsoncpp26{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap2{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp3-9{a} libp11-kit0{a} libpipeline1{a} libproc2-0{a} libpsl5t64{a} librhash1{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1t64{a} libtasn1-6{a} libtext-charwidth-perl{a} libtext-unidecode-perl{a} libtext-wrapi18n-perl{a} libtool{a} libuchardet0{a} libunistring5{a} libuv1t64{a} libxml-libxml-perl{a} libxml-namespacesupport-perl{a} libxml-sax-base-perl{a} libxml-sax-perl{a} libxml2{a} m4{a} man-db{a} po-debconf{a} procps{a} sensible-utils{a} tex-common{a} texinfo{a} texinfo-lib{a} ucf{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl krb5-locales libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules libwww-perl libxml-sax-expat-perl linux-sysctl-defaults lynx psmisc publicsuffix wget 0 packages upgraded, 77 newly installed, 0 to remove and 0 not upgraded. Need to get 50.8 MB of archives. After unpacking 233 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main amd64 libproc2-0 amd64 2:4.0.4-7 [64.9 kB] Get: 2 http://deb.debian.org/debian trixie/main amd64 procps amd64 2:4.0.4-7 [878 kB] Get: 3 http://deb.debian.org/debian trixie/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 4 http://deb.debian.org/debian trixie/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 5 http://deb.debian.org/debian trixie/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 6 http://deb.debian.org/debian trixie/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 7 http://deb.debian.org/debian trixie/main amd64 gettext-base amd64 0.23.1-1 [243 kB] Get: 8 http://deb.debian.org/debian trixie/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 9 http://deb.debian.org/debian trixie/main amd64 groff-base amd64 1.23.0-7 [1185 kB] Get: 10 http://deb.debian.org/debian trixie/main amd64 bsdextrautils amd64 2.40.4-3 [92.1 kB] Get: 11 http://deb.debian.org/debian trixie/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 12 http://deb.debian.org/debian trixie/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 13 http://deb.debian.org/debian trixie/main amd64 libtext-charwidth-perl amd64 0.04-11+b4 [9476 B] Get: 14 http://deb.debian.org/debian trixie/main amd64 libtext-wrapi18n-perl all 0.06-10 [8808 B] Get: 15 http://deb.debian.org/debian trixie/main amd64 ucf all 3.0049 [42.5 kB] Get: 16 http://deb.debian.org/debian trixie/main amd64 m4 amd64 1.4.19-5 [294 kB] Get: 17 http://deb.debian.org/debian trixie/main amd64 autoconf all 2.72-3 [493 kB] Get: 18 http://deb.debian.org/debian trixie/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 19 http://deb.debian.org/debian trixie/main amd64 automake all 1:1.17-3 [862 kB] Get: 20 http://deb.debian.org/debian trixie/main amd64 autopoint all 0.23.1-1 [770 kB] Get: 21 http://deb.debian.org/debian trixie/main amd64 cmake-data all 3.31.5-2 [2267 kB] Get: 22 http://deb.debian.org/debian trixie/main amd64 libicu72 amd64 72.1-6 [9421 kB] Get: 23 http://deb.debian.org/debian trixie/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [699 kB] Get: 24 http://deb.debian.org/debian trixie/main amd64 libarchive13t64 amd64 3.7.4-1.1 [349 kB] Get: 25 http://deb.debian.org/debian trixie/main amd64 libbrotli1 amd64 1.1.0-2+b6 [302 kB] Get: 26 http://deb.debian.org/debian trixie/main amd64 libkrb5support0 amd64 1.21.3-4 [32.8 kB] Get: 27 http://deb.debian.org/debian trixie/main amd64 libcom-err2 amd64 1.47.2-1 [24.0 kB] Get: 28 http://deb.debian.org/debian trixie/main amd64 libk5crypto3 amd64 1.21.3-4 [80.9 kB] Get: 29 http://deb.debian.org/debian trixie/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B] Get: 30 http://deb.debian.org/debian trixie/main amd64 libkrb5-3 amd64 1.21.3-4 [326 kB] Get: 31 http://deb.debian.org/debian trixie/main amd64 libgssapi-krb5-2 amd64 1.21.3-4 [138 kB] Get: 32 http://deb.debian.org/debian trixie/main amd64 libunistring5 amd64 1.3-1 [476 kB] Get: 33 http://deb.debian.org/debian trixie/main amd64 libidn2-0 amd64 2.3.7-2+b1 [129 kB] Get: 34 http://deb.debian.org/debian trixie/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-8+b1 [19.9 kB] Get: 35 http://deb.debian.org/debian trixie/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-8+b1 [57.6 kB] Get: 36 http://deb.debian.org/debian trixie/main amd64 libldap2 amd64 2.6.9+dfsg-1 [192 kB] Get: 37 http://deb.debian.org/debian trixie/main amd64 libnghttp2-14 amd64 1.64.0-1 [75.5 kB] Get: 38 http://deb.debian.org/debian trixie/main amd64 libnghttp3-9 amd64 1.6.0-2 [64.8 kB] Get: 39 http://deb.debian.org/debian trixie/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 40 http://deb.debian.org/debian trixie/main amd64 libffi8 amd64 3.4.7-1 [23.9 kB] Get: 41 http://deb.debian.org/debian trixie/main amd64 libp11-kit0 amd64 0.25.5-3 [425 kB] Get: 42 http://deb.debian.org/debian trixie/main amd64 libtasn1-6 amd64 4.20.0-2 [49.9 kB] Get: 43 http://deb.debian.org/debian trixie/main amd64 libgnutls30t64 amd64 3.8.9-2 [1464 kB] Get: 44 http://deb.debian.org/debian trixie/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB] Get: 45 http://deb.debian.org/debian trixie/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 46 http://deb.debian.org/debian trixie/main amd64 libcurl4t64 amd64 8.12.1-2 [369 kB] Get: 47 http://deb.debian.org/debian trixie/main amd64 libexpat1 amd64 2.6.4-1 [106 kB] Get: 48 http://deb.debian.org/debian trixie/main amd64 libjsoncpp26 amd64 1.9.6-3 [81.7 kB] Get: 49 http://deb.debian.org/debian trixie/main amd64 librhash1 amd64 1.4.5-1 [132 kB] Get: 50 http://deb.debian.org/debian trixie/main amd64 libuv1t64 amd64 1.50.0-2 [154 kB] Get: 51 http://deb.debian.org/debian trixie/main amd64 cmake amd64 3.31.5-2 [12.0 MB] Get: 52 http://deb.debian.org/debian trixie/main amd64 libdebhelper-perl all 13.24.1 [90.9 kB] Get: 53 http://deb.debian.org/debian trixie/main amd64 libtool all 2.5.4-3 [539 kB] Get: 54 http://deb.debian.org/debian trixie/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 55 http://deb.debian.org/debian trixie/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 56 http://deb.debian.org/debian trixie/main amd64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 57 http://deb.debian.org/debian trixie/main amd64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 58 http://deb.debian.org/debian trixie/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 59 http://deb.debian.org/debian trixie/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 60 http://deb.debian.org/debian trixie/main amd64 gettext amd64 0.23.1-1 [1680 kB] Get: 61 http://deb.debian.org/debian trixie/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 62 http://deb.debian.org/debian trixie/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 63 http://deb.debian.org/debian trixie/main amd64 debhelper all 13.24.1 [920 kB] Get: 64 http://deb.debian.org/debian trixie/main amd64 libbpp-core4t64 amd64 2.4.1-13+b1 [629 kB] Get: 65 http://deb.debian.org/debian trixie/main amd64 libbpp-core-dev amd64 2.4.1-13+b1 [967 kB] Get: 66 http://deb.debian.org/debian trixie/main amd64 libbpp-seq12t64 amd64 2.4.1-13 [510 kB] Get: 67 http://deb.debian.org/debian trixie/main amd64 libbpp-phyl12t64 amd64 2.4.1-11+b2 [1711 kB] Get: 68 http://deb.debian.org/debian trixie/main amd64 libbpp-seq-dev amd64 2.4.1-13 [745 kB] Get: 69 http://deb.debian.org/debian trixie/main amd64 libbpp-phyl-dev amd64 2.4.1-11+b2 [2997 kB] Get: 70 http://deb.debian.org/debian trixie/main amd64 libtext-unidecode-perl all 1.30-3 [101 kB] Get: 71 http://deb.debian.org/debian trixie/main amd64 libxml-namespacesupport-perl all 1.12-2 [15.1 kB] Get: 72 http://deb.debian.org/debian trixie/main amd64 libxml-sax-base-perl all 1.09-3 [20.6 kB] Get: 73 http://deb.debian.org/debian trixie/main amd64 libxml-sax-perl all 1.02+dfsg-4 [53.4 kB] Get: 74 http://deb.debian.org/debian trixie/main amd64 libxml-libxml-perl amd64 2.0207+dfsg+really+2.0134-5+b2 [314 kB] Get: 75 http://deb.debian.org/debian trixie/main amd64 tex-common all 6.18 [32.5 kB] Get: 76 http://deb.debian.org/debian trixie/main amd64 texinfo-lib amd64 7.1.1-1+b1 [232 kB] Get: 77 http://deb.debian.org/debian trixie/main amd64 texinfo all 7.1.1-1 [1753 kB] Fetched 50.8 MB in 2s (30.7 MB/s) Preconfiguring packages ... Selecting previously unselected package libproc2-0:amd64. (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 ... 19858 files and directories currently installed.) Preparing to unpack .../00-libproc2-0_2%3a4.0.4-7_amd64.deb ... Unpacking libproc2-0:amd64 (2:4.0.4-7) ... Selecting previously unselected package procps. Preparing to unpack .../01-procps_2%3a4.0.4-7_amd64.deb ... Unpacking procps (2:4.0.4-7) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../02-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../03-libmagic-mgc_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../04-libmagic1t64_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../05-file_1%3a5.45-3+b1_amd64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../06-gettext-base_0.23.1-1_amd64.deb ... Unpacking gettext-base (0.23.1-1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../07-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 .../08-groff-base_1.23.0-7_amd64.deb ... Unpacking groff-base (1.23.0-7) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../09-bsdextrautils_2.40.4-3_amd64.deb ... Unpacking bsdextrautils (2.40.4-3) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../10-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../11-man-db_2.13.0-1_amd64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package libtext-charwidth-perl:amd64. Preparing to unpack .../12-libtext-charwidth-perl_0.04-11+b4_amd64.deb ... Unpacking libtext-charwidth-perl:amd64 (0.04-11+b4) ... Selecting previously unselected package libtext-wrapi18n-perl. Preparing to unpack .../13-libtext-wrapi18n-perl_0.06-10_all.deb ... Unpacking libtext-wrapi18n-perl (0.06-10) ... Selecting previously unselected package ucf. Preparing to unpack .../14-ucf_3.0049_all.deb ... Moving old data out of the way Unpacking ucf (3.0049) ... Selecting previously unselected package m4. Preparing to unpack .../15-m4_1.4.19-5_amd64.deb ... Unpacking m4 (1.4.19-5) ... Selecting previously unselected package autoconf. Preparing to unpack .../16-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../17-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../18-automake_1%3a1.17-3_all.deb ... Unpacking automake (1:1.17-3) ... Selecting previously unselected package autopoint. Preparing to unpack .../19-autopoint_0.23.1-1_all.deb ... Unpacking autopoint (0.23.1-1) ... Selecting previously unselected package cmake-data. Preparing to unpack .../20-cmake-data_3.31.5-2_all.deb ... Unpacking cmake-data (3.31.5-2) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../21-libicu72_72.1-6_amd64.deb ... Unpacking libicu72:amd64 (72.1-6) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../22-libxml2_2.12.7+dfsg+really2.9.14-0.2+b1_amd64.deb ... Unpacking libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Selecting previously unselected package libarchive13t64:amd64. Preparing to unpack .../23-libarchive13t64_3.7.4-1.1_amd64.deb ... Unpacking libarchive13t64:amd64 (3.7.4-1.1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../24-libbrotli1_1.1.0-2+b6_amd64.deb ... Unpacking libbrotli1:amd64 (1.1.0-2+b6) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../25-libkrb5support0_1.21.3-4_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-4) ... Selecting previously unselected package libcom-err2:amd64. Preparing to unpack .../26-libcom-err2_1.47.2-1_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.2-1) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../27-libk5crypto3_1.21.3-4_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-4) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../28-libkeyutils1_1.6.3-4_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-4) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../29-libkrb5-3_1.21.3-4_amd64.deb ... Unpacking libkrb5-3:amd64 (1.21.3-4) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../30-libgssapi-krb5-2_1.21.3-4_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.21.3-4) ... Selecting previously unselected package libunistring5:amd64. Preparing to unpack .../31-libunistring5_1.3-1_amd64.deb ... Unpacking libunistring5:amd64 (1.3-1) ... Selecting previously unselected package libidn2-0:amd64. Preparing to unpack .../32-libidn2-0_2.3.7-2+b1_amd64.deb ... 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Setting up libbpp-seq-dev:amd64 (2.4.1-13) ... Setting up gettext (0.23.1-1) ... Setting up libtool (2.5.4-3) ... Setting up libbpp-phyl12t64:amd64 (2.4.1-11+b2) ... Setting up libidn2-0:amd64 (2.3.7-2+b1) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libbpp-phyl-dev:amd64 (2.4.1-11+b2) ... Setting up libp11-kit0:amd64 (0.25.5-3) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-4) ... Setting up ucf (3.0049) ... Setting up dh-strip-nondeterminism (1.14.1-2) ... Setting up groff-base (1.23.0-7) ... Setting up libarchive13t64:amd64 (3.7.4-1.1) ... Setting up libgnutls30t64:amd64 (3.8.9-2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpsl5t64:amd64 (0.21.2-1.1+b1) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libxml-sax-perl (1.02+dfsg-4) ... update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::PurePerl with priority 10... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up tex-common (6.18) ... update-language: texlive-base not installed and configured, doing nothing! Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libxml-libxml-perl (2.0207+dfsg+really+2.0134-5+b2) ... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libcurl4t64:amd64 (8.12.1-2) ... Setting up debhelper (13.24.1) ... Setting up texinfo (7.1.1-1) ... Setting up cmake (3.31.5-2) ... Processing triggers for libc-bin (2.40-7) ... 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/physamp-1.1.0/ && 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 > ../physamp_1.1.0-5_source.changes dpkg-buildpackage: info: source package physamp dpkg-buildpackage: info: source version 1.1.0-5 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Michael R. Crusoe dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure cd obj-x86_64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu .. CMake Deprecation Warning at CMakeLists.txt:6 (CMAKE_MINIMUM_REQUIRED): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- The CXX compiler identification is GNU 14.2.0 -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Found /usr/bin/gzip compression program, using file extension .gz -- bpp-core 4.1.0 found: -- static lib: /usr/lib/x86_64-linux-gnu/libbpp-core.a -- shared lib: /usr/lib/x86_64-linux-gnu/libbpp-core.so.4.1.0 -- includes: /usr/include -- bpp-seq 12.0.0 found: -- static lib: /usr/lib/x86_64-linux-gnu/libbpp-seq.a -- shared lib: /usr/lib/x86_64-linux-gnu/libbpp-seq.so.12.0.0 -- includes: /usr/include -- bpp-phyl 12.0.0 found: -- static lib: /usr/lib/x86_64-linux-gnu/libbpp-phyl.a -- shared lib: /usr/lib/x86_64-linux-gnu/libbpp-phyl.so.12.0.0 -- includes: /usr/include -- Found makeinfo as '/usr/bin/makeinfo': 'info' and 'html' target enabled (builds info/html doc) -- Found texi2dvi: 'pdf' target enabled (builds pdf doc) -- Configuring done (0.5s) -- Generating done (0.0s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu dh_auto_build cd obj-x86_64-linux-gnu && make -j12 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/physamp-1.1.0 -B/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/CMakeFiles 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/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/docs /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/docs/CMakeFiles/info.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/physamp-1.1.0 /build/reproducible-path/physamp-1.1.0/man /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/man /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/man/CMakeFiles/man.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make -f man/CMakeFiles/man.dir/build.make man/CMakeFiles/man.dir/build make[3]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make -f physamp/CMakeFiles/bppalnoptim.dir/build.make physamp/CMakeFiles/bppalnoptim.dir/build make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make -f physamp/CMakeFiles/bppphysamp.dir/build.make physamp/CMakeFiles/bppphysamp.dir/build make[3]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make -f docs/CMakeFiles/info.dir/build.make docs/CMakeFiles/info.dir/build make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' [ 12%] Generating info page cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/docs && /usr/bin/makeinfo --no-split -o /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/docs/physamp.info /build/reproducible-path/physamp-1.1.0/docs/physamp.texi [ 25%] Compressing manpage bppalnoptim.1 cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/man && /usr/bin/gzip -c9n /build/reproducible-path/physamp-1.1.0/man/bppalnoptim.1 > /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/man/bppalnoptim.1.gz [ 37%] Building CXX object physamp/CMakeFiles/bppphysamp.dir/PhyloSampler.cpp.o [ 50%] Building CXX object physamp/CMakeFiles/bppalnoptim.dir/AlignmentOptimizer.cpp.o cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/physamp && /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/physamp-1.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT physamp/CMakeFiles/bppalnoptim.dir/AlignmentOptimizer.cpp.o -MF CMakeFiles/bppalnoptim.dir/AlignmentOptimizer.cpp.o.d -o CMakeFiles/bppalnoptim.dir/AlignmentOptimizer.cpp.o -c /build/reproducible-path/physamp-1.1.0/physamp/AlignmentOptimizer.cpp cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/physamp && /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/physamp-1.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT physamp/CMakeFiles/bppphysamp.dir/PhyloSampler.cpp.o -MF CMakeFiles/bppphysamp.dir/PhyloSampler.cpp.o.d -o CMakeFiles/bppphysamp.dir/PhyloSampler.cpp.o -c /build/reproducible-path/physamp-1.1.0/physamp/PhyloSampler.cpp [ 62%] Compressing manpage bppphysamp.1 cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/man && /usr/bin/gzip -c9n /build/reproducible-path/physamp-1.1.0/man/bppphysamp.1 > /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/man/bppphysamp.1.gz make[3]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' [ 62%] Built target man [ 75%] Compressing info page cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/docs && /usr/bin/gzip -c9n /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/docs/physamp.info > /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/docs/physamp.info.gz make[3]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' [ 75%] Built target info /build/reproducible-path/physamp-1.1.0/physamp/AlignmentOptimizer.cpp: In function 'int main(int, char**)': /build/reproducible-path/physamp-1.1.0/physamp/AlignmentOptimizer.cpp:444:13: warning: catching polymorphic type 'class bpp::SequenceNotFoundException' by value [-Wcatch-value=] 444 | } catch(SequenceNotFoundException) { | ^~~~~~~~~~~~~~~~~~~~~~~~~ [ 87%] Linking CXX executable bppphysamp cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/physamp && /usr/bin/cmake -E cmake_link_script CMakeFiles/bppphysamp.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/physamp-1.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic -Wl,--dependency-file=CMakeFiles/bppphysamp.dir/link.d CMakeFiles/bppphysamp.dir/PhyloSampler.cpp.o -o bppphysamp /usr/lib/x86_64-linux-gnu/libbpp-phyl.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-seq.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-core.so.4.1.0 make[3]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' [ 87%] Built target bppphysamp [100%] Linking CXX executable bppalnoptim cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/physamp && /usr/bin/cmake -E cmake_link_script CMakeFiles/bppalnoptim.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/physamp-1.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic -Wl,--dependency-file=CMakeFiles/bppalnoptim.dir/link.d CMakeFiles/bppalnoptim.dir/AlignmentOptimizer.cpp.o -o bppalnoptim /usr/lib/x86_64-linux-gnu/libbpp-phyl.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-seq.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-core.so.4.1.0 make[3]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' [100%] Built target bppalnoptim make[2]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/physamp/ cd obj-x86_64-linux-gnu && make -j12 install DESTDIR=/build/reproducible-path/physamp-1.1.0/debian/physamp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/physamp-1.1.0 -B/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/reproducible-path/physamp-1.1.0/debian/physamp/usr/bin/bppalnoptim -- Installing: /build/reproducible-path/physamp-1.1.0/debian/physamp/usr/bin/bppphysamp -- Installing: /build/reproducible-path/physamp-1.1.0/debian/physamp/usr/share/info/physamp.info.gz -- Installing: /build/reproducible-path/physamp-1.1.0/debian/physamp/usr/share/man/man1/bppalnoptim.1.gz -- Installing: /build/reproducible-path/physamp-1.1.0/debian/physamp/usr/share/man/man1/bppphysamp.1.gz make[1]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' dh_installdocs dh_installchangelogs dh_installexamples dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'physamp' in '../physamp_1.1.0-5_amd64.deb'. dpkg-deb: building package 'physamp-dbgsym' in '../physamp-dbgsym_1.1.0-5_amd64.deb'. dpkg-genbuildinfo --build=binary -O../physamp_1.1.0-5_amd64.buildinfo dpkg-genchanges --build=binary -O../physamp_1.1.0-5_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/2435468 and its subdirectories I: Current time: Fri Feb 21 20:58:15 -12 2025 I: pbuilder-time-stamp: 1740214695 Sat Feb 22 08:58:16 UTC 2025 I: 1st build successful. Starting 2nd build on remote node infom02-amd64.debian.net. Sat Feb 22 08:58:16 UTC 2025 I: Preparing to do remote build '2' on infom02-amd64.debian.net. Sat Feb 22 08:58:16 UTC 2025 - checking /var/lib/jenkins/offline_nodes if infom02-amd64.debian.net is marked as down. Sat Feb 22 08:58:16 UTC 2025 - checking via ssh if infom02-amd64.debian.net is up. removed '/tmp/read-only-fs-test-nFuPCb' ==================================================================================== Fri Mar 27 15:21:18 UTC 2026 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on infom02-amd64, called using "2 physamp trixie /srv/reproducible-results/rbuild-debian/r-b-build.jDbhUzfq 1.1.0-5" as arguments. Fri Mar 27 15:21:18 UTC 2026 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-rF58iUQj" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Fri Mar 27 15:21:18 UTC 2026 I: Downloading source for trixie/physamp=1.1.0-5 Reading package lists... NOTICE: 'physamp' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/physamp.git Please use: git clone https://salsa.debian.org/med-team/physamp.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 248 kB of source archives. Get:1 http://deb.debian.org/debian trixie/main physamp 1.1.0-5 (dsc) [2001 B] Get:2 http://deb.debian.org/debian trixie/main physamp 1.1.0-5 (tar) [242 kB] Get:3 http://deb.debian.org/debian trixie/main physamp 1.1.0-5 (diff) [3924 B] Fetched 248 kB in 0s (954 kB/s) Download complete and in download only mode Reading package lists... NOTICE: 'physamp' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/physamp.git Please use: git clone https://salsa.debian.org/med-team/physamp.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 248 kB of source archives. Get:1 http://deb.debian.org/debian trixie/main physamp 1.1.0-5 (dsc) [2001 B] Get:2 http://deb.debian.org/debian trixie/main physamp 1.1.0-5 (tar) [242 kB] Get:3 http://deb.debian.org/debian trixie/main physamp 1.1.0-5 (diff) [3924 B] Fetched 248 kB in 0s (954 kB/s) Download complete and in download only mode ============================================================================= Re-Building physamp in trixie on amd64 on infom02-amd64 now. Date: Fri Mar 27 15:21:19 UTC 2026 Date UTC: Fri Mar 27 15:21:19 UTC 2026 ============================================================================= ++ mktemp -t pbuilderrc_XXXX --tmpdir=/srv/reproducible-results/rbuild-debian/r-b-build.jDbhUzfq + local TMPCFG=/srv/reproducible-results/rbuild-debian/r-b-build.jDbhUzfq/pbuilderrc_mMgO + case ${ARCH} in + case $ARCH in + locale=et_EE + language=et + case "${SUITE}" in + reproducible_buildflags=+all + extra_deb_build_options= + case "${SRCPACKAGE}" in + cat + echo BUILDDIR=/build/reproducible-path + '[' physamp = debian-installer -o physamp = debian-installer-netboot-images ']' + pbuilder_options=() + local pbuilder_options + DEBBUILDOPTS=-b + BINARYTARGET= + '[' physamp = u-boot ']' + case "${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.jDbhUzfq/pbuilderrc_mMgO --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.jDbhUzfq/b2 --logfile b2/build.log physamp_1.1.0-5.dsc W: /root/.pbuilderrc does not exist I: Logging to b2/build.log I: pbuilder: network access will be disabled during build I: Current time: Sat Mar 28 05:21:19 +14 2026 I: pbuilder-time-stamp: 1774624879 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [physamp_1.1.0-5.dsc] I: copying [./physamp_1.1.0.orig.tar.gz] I: copying [./physamp_1.1.0-5.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./physamp_1.1.0-5.dsc: unsupported subcommand dpkg-source: info: extracting physamp in physamp-1.1.0 dpkg-source: info: unpacking physamp_1.1.0.orig.tar.gz dpkg-source: info: unpacking physamp_1.1.0-5.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying unforce-cxxflags.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1968443/tmp/hooks/D01_modify_environment starting debug: Running on infom02-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 Mar 27 15:21 /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/1968443/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/1968443/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=12 ' DIRSTACK=() DISTRIBUTION=trixie EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=x86_64 HOST_ARCH=amd64 IFS=' ' INVOCATION_ID=71d524c639784caca670a2c368d1797f 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=1968443 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.jDbhUzfq/pbuilderrc_mMgO --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.jDbhUzfq/b2 --logfile b2/build.log physamp_1.1.0-5.dsc' SUDO_GID=109 SUDO_UID=104 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' I: uname -a Linux i-capture-the-hostname 6.12.9+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.9-1~bpo12+1 (2025-01-19) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin I: user script /srv/workspace/pbuilder/1968443/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), cmake, texinfo, libbpp-phyl-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19858 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on texinfo; however: Package texinfo is not installed. pbuilder-satisfydepends-dummy depends on libbpp-phyl-dev; however: Package libbpp-phyl-dev 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} cmake{a} cmake-data{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} libarchive13t64{a} libbpp-core-dev{a} libbpp-core4t64{a} libbpp-phyl-dev{a} libbpp-phyl12t64{a} libbpp-seq-dev{a} libbpp-seq12t64{a} libbrotli1{a} libcom-err2{a} libcurl4t64{a} libdebhelper-perl{a} libelf1t64{a} libexpat1{a} libffi8{a} libfile-stripnondeterminism-perl{a} libgnutls30t64{a} libgssapi-krb5-2{a} libicu72{a} libidn2-0{a} libjsoncpp26{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap2{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libnghttp3-9{a} libp11-kit0{a} libpipeline1{a} libproc2-0{a} libpsl5t64{a} librhash1{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1t64{a} libtasn1-6{a} libtext-charwidth-perl{a} libtext-unidecode-perl{a} libtext-wrapi18n-perl{a} libtool{a} libuchardet0{a} libunistring5{a} libuv1t64{a} libxml-libxml-perl{a} libxml-namespacesupport-perl{a} libxml-sax-base-perl{a} libxml-sax-perl{a} libxml2{a} m4{a} man-db{a} po-debconf{a} procps{a} sensible-utils{a} tex-common{a} texinfo{a} texinfo-lib{a} ucf{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl krb5-locales libarchive-cpio-perl libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules libwww-perl libxml-sax-expat-perl linux-sysctl-defaults lynx psmisc publicsuffix wget 0 packages upgraded, 77 newly installed, 0 to remove and 0 not upgraded. Need to get 50.8 MB of archives. After unpacking 233 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main amd64 libproc2-0 amd64 2:4.0.4-7 [64.9 kB] Get: 2 http://deb.debian.org/debian trixie/main amd64 procps amd64 2:4.0.4-7 [878 kB] Get: 3 http://deb.debian.org/debian trixie/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 4 http://deb.debian.org/debian trixie/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 5 http://deb.debian.org/debian trixie/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 6 http://deb.debian.org/debian trixie/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 7 http://deb.debian.org/debian trixie/main amd64 gettext-base amd64 0.23.1-1 [243 kB] Get: 8 http://deb.debian.org/debian trixie/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 9 http://deb.debian.org/debian trixie/main amd64 groff-base amd64 1.23.0-7 [1185 kB] Get: 10 http://deb.debian.org/debian trixie/main amd64 bsdextrautils amd64 2.40.4-3 [92.1 kB] Get: 11 http://deb.debian.org/debian trixie/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 12 http://deb.debian.org/debian trixie/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 13 http://deb.debian.org/debian trixie/main amd64 libtext-charwidth-perl amd64 0.04-11+b4 [9476 B] Get: 14 http://deb.debian.org/debian trixie/main amd64 libtext-wrapi18n-perl all 0.06-10 [8808 B] Get: 15 http://deb.debian.org/debian trixie/main amd64 ucf all 3.0049 [42.5 kB] Get: 16 http://deb.debian.org/debian trixie/main amd64 m4 amd64 1.4.19-5 [294 kB] Get: 17 http://deb.debian.org/debian trixie/main amd64 autoconf all 2.72-3 [493 kB] Get: 18 http://deb.debian.org/debian trixie/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 19 http://deb.debian.org/debian trixie/main amd64 automake all 1:1.17-3 [862 kB] Get: 20 http://deb.debian.org/debian trixie/main amd64 autopoint all 0.23.1-1 [770 kB] Get: 21 http://deb.debian.org/debian trixie/main amd64 cmake-data all 3.31.5-2 [2267 kB] Get: 22 http://deb.debian.org/debian trixie/main amd64 libicu72 amd64 72.1-6 [9421 kB] Get: 23 http://deb.debian.org/debian trixie/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [699 kB] Get: 24 http://deb.debian.org/debian trixie/main amd64 libarchive13t64 amd64 3.7.4-1.1 [349 kB] Get: 25 http://deb.debian.org/debian trixie/main amd64 libbrotli1 amd64 1.1.0-2+b6 [302 kB] Get: 26 http://deb.debian.org/debian trixie/main amd64 libkrb5support0 amd64 1.21.3-4 [32.8 kB] Get: 27 http://deb.debian.org/debian trixie/main amd64 libcom-err2 amd64 1.47.2-1 [24.0 kB] Get: 28 http://deb.debian.org/debian trixie/main amd64 libk5crypto3 amd64 1.21.3-4 [80.9 kB] Get: 29 http://deb.debian.org/debian trixie/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B] Get: 30 http://deb.debian.org/debian trixie/main amd64 libkrb5-3 amd64 1.21.3-4 [326 kB] Get: 31 http://deb.debian.org/debian trixie/main amd64 libgssapi-krb5-2 amd64 1.21.3-4 [138 kB] Get: 32 http://deb.debian.org/debian trixie/main amd64 libunistring5 amd64 1.3-1 [476 kB] Get: 33 http://deb.debian.org/debian trixie/main amd64 libidn2-0 amd64 2.3.7-2+b1 [129 kB] Get: 34 http://deb.debian.org/debian trixie/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-8+b1 [19.9 kB] Get: 35 http://deb.debian.org/debian trixie/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-8+b1 [57.6 kB] Get: 36 http://deb.debian.org/debian trixie/main amd64 libldap2 amd64 2.6.9+dfsg-1 [192 kB] Get: 37 http://deb.debian.org/debian trixie/main amd64 libnghttp2-14 amd64 1.64.0-1 [75.5 kB] Get: 38 http://deb.debian.org/debian trixie/main amd64 libnghttp3-9 amd64 1.6.0-2 [64.8 kB] Get: 39 http://deb.debian.org/debian trixie/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 40 http://deb.debian.org/debian trixie/main amd64 libffi8 amd64 3.4.7-1 [23.9 kB] Get: 41 http://deb.debian.org/debian trixie/main amd64 libp11-kit0 amd64 0.25.5-3 [425 kB] Get: 42 http://deb.debian.org/debian trixie/main amd64 libtasn1-6 amd64 4.20.0-2 [49.9 kB] Get: 43 http://deb.debian.org/debian trixie/main amd64 libgnutls30t64 amd64 3.8.9-2 [1464 kB] Get: 44 http://deb.debian.org/debian trixie/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB] Get: 45 http://deb.debian.org/debian trixie/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 46 http://deb.debian.org/debian trixie/main amd64 libcurl4t64 amd64 8.12.1-2 [369 kB] Get: 47 http://deb.debian.org/debian trixie/main amd64 libexpat1 amd64 2.6.4-1 [106 kB] Get: 48 http://deb.debian.org/debian trixie/main amd64 libjsoncpp26 amd64 1.9.6-3 [81.7 kB] Get: 49 http://deb.debian.org/debian trixie/main amd64 librhash1 amd64 1.4.5-1 [132 kB] Get: 50 http://deb.debian.org/debian trixie/main amd64 libuv1t64 amd64 1.50.0-2 [154 kB] Get: 51 http://deb.debian.org/debian trixie/main amd64 cmake amd64 3.31.5-2 [12.0 MB] Get: 52 http://deb.debian.org/debian trixie/main amd64 libdebhelper-perl all 13.24.1 [90.9 kB] Get: 53 http://deb.debian.org/debian trixie/main amd64 libtool all 2.5.4-3 [539 kB] Get: 54 http://deb.debian.org/debian trixie/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 55 http://deb.debian.org/debian trixie/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 56 http://deb.debian.org/debian trixie/main amd64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB] Get: 57 http://deb.debian.org/debian trixie/main amd64 dh-strip-nondeterminism all 1.14.1-2 [8620 B] Get: 58 http://deb.debian.org/debian trixie/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 59 http://deb.debian.org/debian trixie/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 60 http://deb.debian.org/debian trixie/main amd64 gettext amd64 0.23.1-1 [1680 kB] Get: 61 http://deb.debian.org/debian trixie/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 62 http://deb.debian.org/debian trixie/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 63 http://deb.debian.org/debian trixie/main amd64 debhelper all 13.24.1 [920 kB] Get: 64 http://deb.debian.org/debian trixie/main amd64 libbpp-core4t64 amd64 2.4.1-13+b1 [629 kB] Get: 65 http://deb.debian.org/debian trixie/main amd64 libbpp-core-dev amd64 2.4.1-13+b1 [967 kB] Get: 66 http://deb.debian.org/debian trixie/main amd64 libbpp-seq12t64 amd64 2.4.1-13 [510 kB] Get: 67 http://deb.debian.org/debian trixie/main amd64 libbpp-phyl12t64 amd64 2.4.1-11+b2 [1711 kB] Get: 68 http://deb.debian.org/debian trixie/main amd64 libbpp-seq-dev amd64 2.4.1-13 [745 kB] Get: 69 http://deb.debian.org/debian trixie/main amd64 libbpp-phyl-dev amd64 2.4.1-11+b2 [2997 kB] Get: 70 http://deb.debian.org/debian trixie/main amd64 libtext-unidecode-perl all 1.30-3 [101 kB] Get: 71 http://deb.debian.org/debian trixie/main amd64 libxml-namespacesupport-perl all 1.12-2 [15.1 kB] Get: 72 http://deb.debian.org/debian trixie/main amd64 libxml-sax-base-perl all 1.09-3 [20.6 kB] Get: 73 http://deb.debian.org/debian trixie/main amd64 libxml-sax-perl all 1.02+dfsg-4 [53.4 kB] Get: 74 http://deb.debian.org/debian trixie/main amd64 libxml-libxml-perl amd64 2.0207+dfsg+really+2.0134-5+b2 [314 kB] Get: 75 http://deb.debian.org/debian trixie/main amd64 tex-common all 6.18 [32.5 kB] Get: 76 http://deb.debian.org/debian trixie/main amd64 texinfo-lib amd64 7.1.1-1+b1 [232 kB] Get: 77 http://deb.debian.org/debian trixie/main amd64 texinfo all 7.1.1-1 [1753 kB] Fetched 50.8 MB in 2s (32.0 MB/s) Preconfiguring packages ... Selecting previously unselected package libproc2-0:amd64. (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 ... 19858 files and directories currently installed.) Preparing to unpack .../00-libproc2-0_2%3a4.0.4-7_amd64.deb ... Unpacking libproc2-0:amd64 (2:4.0.4-7) ... Selecting previously unselected package procps. Preparing to unpack .../01-procps_2%3a4.0.4-7_amd64.deb ... Unpacking procps (2:4.0.4-7) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../02-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../03-libmagic-mgc_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../04-libmagic1t64_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../05-file_1%3a5.45-3+b1_amd64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../06-gettext-base_0.23.1-1_amd64.deb ... Unpacking gettext-base (0.23.1-1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../07-libuchardet0_0.0.8-1+b2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. 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Preparing to unpack .../14-ucf_3.0049_all.deb ... Moving old data out of the way Unpacking ucf (3.0049) ... Selecting previously unselected package m4. Preparing to unpack .../15-m4_1.4.19-5_amd64.deb ... Unpacking m4 (1.4.19-5) ... Selecting previously unselected package autoconf. Preparing to unpack .../16-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../17-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../18-automake_1%3a1.17-3_all.deb ... Unpacking automake (1:1.17-3) ... Selecting previously unselected package autopoint. Preparing to unpack .../19-autopoint_0.23.1-1_all.deb ... Unpacking autopoint (0.23.1-1) ... Selecting previously unselected package cmake-data. Preparing to unpack .../20-cmake-data_3.31.5-2_all.deb ... Unpacking cmake-data (3.31.5-2) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../21-libicu72_72.1-6_amd64.deb ... Unpacking libicu72:amd64 (72.1-6) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../22-libxml2_2.12.7+dfsg+really2.9.14-0.2+b1_amd64.deb ... Unpacking libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Selecting previously unselected package libarchive13t64:amd64. Preparing to unpack .../23-libarchive13t64_3.7.4-1.1_amd64.deb ... Unpacking libarchive13t64:amd64 (3.7.4-1.1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../24-libbrotli1_1.1.0-2+b6_amd64.deb ... Unpacking libbrotli1:amd64 (1.1.0-2+b6) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../25-libkrb5support0_1.21.3-4_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-4) ... Selecting previously unselected package libcom-err2:amd64. Preparing to unpack .../26-libcom-err2_1.47.2-1_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.2-1) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../27-libk5crypto3_1.21.3-4_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-4) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../28-libkeyutils1_1.6.3-4_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-4) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../29-libkrb5-3_1.21.3-4_amd64.deb ... Unpacking libkrb5-3:amd64 (1.21.3-4) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../30-libgssapi-krb5-2_1.21.3-4_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.21.3-4) ... Selecting previously unselected package libunistring5:amd64. Preparing to unpack .../31-libunistring5_1.3-1_amd64.deb ... Unpacking libunistring5:amd64 (1.3-1) ... Selecting previously unselected package libidn2-0:amd64. Preparing to unpack .../32-libidn2-0_2.3.7-2+b1_amd64.deb ... 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Selecting previously unselected package libssh2-1t64:amd64. Preparing to unpack .../44-libssh2-1t64_1.11.1-1_amd64.deb ... Unpacking libssh2-1t64:amd64 (1.11.1-1) ... Selecting previously unselected package libcurl4t64:amd64. Preparing to unpack .../45-libcurl4t64_8.12.1-2_amd64.deb ... Unpacking libcurl4t64:amd64 (8.12.1-2) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../46-libexpat1_2.6.4-1_amd64.deb ... Unpacking libexpat1:amd64 (2.6.4-1) ... Selecting previously unselected package libjsoncpp26:amd64. Preparing to unpack .../47-libjsoncpp26_1.9.6-3_amd64.deb ... Unpacking libjsoncpp26:amd64 (1.9.6-3) ... Selecting previously unselected package librhash1:amd64. Preparing to unpack .../48-librhash1_1.4.5-1_amd64.deb ... Unpacking librhash1:amd64 (1.4.5-1) ... Selecting previously unselected package libuv1t64:amd64. Preparing to unpack .../49-libuv1t64_1.50.0-2_amd64.deb ... Unpacking libuv1t64:amd64 (1.50.0-2) ... Selecting previously unselected package cmake. Preparing to unpack .../50-cmake_3.31.5-2_amd64.deb ... Unpacking cmake (3.31.5-2) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../51-libdebhelper-perl_13.24.1_all.deb ... Unpacking libdebhelper-perl (13.24.1) ... Selecting previously unselected package libtool. Preparing to unpack .../52-libtool_2.5.4-3_all.deb ... Unpacking libtool (2.5.4-3) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../53-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../54-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 .../55-libfile-stripnondeterminism-perl_1.14.1-2_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.1-2) ... 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Setting up libk5crypto3:amd64 (1.21.3-4) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-8+b1) ... Setting up autoconf (2.72-3) ... Setting up libnghttp3-9:amd64 (1.6.0-2) ... Setting up libffi8:amd64 (3.4.7-1) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libuchardet0:amd64 (0.0.8-1+b2) ... Setting up procps (2:4.0.4-7) ... Setting up libtasn1-6:amd64 (4.20.0-2) ... Setting up cmake-data (3.31.5-2) ... Setting up librhash1:amd64 (1.4.5-1) ... Setting up libkrb5-3:amd64 (1.21.3-4) ... Setting up libssh2-1t64:amd64 (1.11.1-1) ... Setting up libtext-unidecode-perl (1.30-3) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up libldap2:amd64 (2.6.9+dfsg-1) ... Setting up libbpp-seq12t64:amd64 (2.4.1-13) ... Setting up automake (1:1.17-3) ... 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 libbpp-seq-dev:amd64 (2.4.1-13) ... Setting up gettext (0.23.1-1) ... Setting up libtool (2.5.4-3) ... Setting up libbpp-phyl12t64:amd64 (2.4.1-11+b2) ... Setting up libidn2-0:amd64 (2.3.7-2+b1) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libbpp-phyl-dev:amd64 (2.4.1-11+b2) ... Setting up libp11-kit0:amd64 (0.25.5-3) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-4) ... Setting up ucf (3.0049) ... Setting up dh-strip-nondeterminism (1.14.1-2) ... Setting up groff-base (1.23.0-7) ... Setting up libarchive13t64:amd64 (3.7.4-1.1) ... Setting up libgnutls30t64:amd64 (3.8.9-2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libpsl5t64:amd64 (0.21.2-1.1+b1) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libxml-sax-perl (1.02+dfsg-4) ... update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::PurePerl with priority 10... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up tex-common (6.18) ... update-language: texlive-base not installed and configured, doing nothing! Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libxml-libxml-perl (2.0207+dfsg+really+2.0134-5+b2) ... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50... update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX with priority 50... update-perl-sax-parsers: Updating overall Perl SAX parser modules info file... Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version Setting up libcurl4t64:amd64 (8.12.1-2) ... Setting up debhelper (13.24.1) ... Setting up texinfo (7.1.1-1) ... Setting up cmake (3.31.5-2) ... Processing triggers for libc-bin (2.40-7) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: user script /srv/workspace/pbuilder/1968443/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for trixie I: user script /srv/workspace/pbuilder/1968443/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/physamp-1.1.0/ && 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 > ../physamp_1.1.0-5_source.changes dpkg-buildpackage: info: source package physamp dpkg-buildpackage: info: source version 1.1.0-5 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Michael R. Crusoe dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf dh_auto_configure cd obj-x86_64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu .. CMake Deprecation Warning at CMakeLists.txt:6 (CMAKE_MINIMUM_REQUIRED): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- The CXX compiler identification is GNU 14.2.0 -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Found /usr/bin/gzip compression program, using file extension .gz -- bpp-core 4.1.0 found: -- static lib: /usr/lib/x86_64-linux-gnu/libbpp-core.a -- shared lib: /usr/lib/x86_64-linux-gnu/libbpp-core.so.4.1.0 -- includes: /usr/include -- bpp-seq 12.0.0 found: -- static lib: /usr/lib/x86_64-linux-gnu/libbpp-seq.a -- shared lib: /usr/lib/x86_64-linux-gnu/libbpp-seq.so.12.0.0 -- includes: /usr/include -- bpp-phyl 12.0.0 found: -- static lib: /usr/lib/x86_64-linux-gnu/libbpp-phyl.a -- shared lib: /usr/lib/x86_64-linux-gnu/libbpp-phyl.so.12.0.0 -- includes: /usr/include -- Found makeinfo as '/usr/bin/makeinfo': 'info' and 'html' target enabled (builds info/html doc) -- Found texi2dvi: 'pdf' target enabled (builds pdf doc) -- Configuring done (1.4s) -- Generating done (0.0s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu dh_auto_build cd obj-x86_64-linux-gnu && make -j12 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/physamp-1.1.0 -B/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make -f physamp/CMakeFiles/bppalnoptim.dir/build.make physamp/CMakeFiles/bppalnoptim.dir/depend make -f physamp/CMakeFiles/bppphysamp.dir/build.make physamp/CMakeFiles/bppphysamp.dir/depend make -f docs/CMakeFiles/info.dir/build.make docs/CMakeFiles/info.dir/depend make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/physamp-1.1.0 /build/reproducible-path/physamp-1.1.0/physamp /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/physamp /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/physamp/CMakeFiles/bppalnoptim.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/physamp-1.1.0 /build/reproducible-path/physamp-1.1.0/docs /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/docs /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/docs/CMakeFiles/info.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/physamp-1.1.0 /build/reproducible-path/physamp-1.1.0/physamp /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/physamp /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/physamp/CMakeFiles/bppphysamp.dir/DependInfo.cmake "--color=" make -f man/CMakeFiles/man.dir/build.make man/CMakeFiles/man.dir/depend make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/physamp-1.1.0 /build/reproducible-path/physamp-1.1.0/man /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/man /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/man/CMakeFiles/man.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make -f docs/CMakeFiles/info.dir/build.make docs/CMakeFiles/info.dir/build make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make -f physamp/CMakeFiles/bppphysamp.dir/build.make physamp/CMakeFiles/bppphysamp.dir/build make[3]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make -f physamp/CMakeFiles/bppalnoptim.dir/build.make physamp/CMakeFiles/bppalnoptim.dir/build make[3]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make -f man/CMakeFiles/man.dir/build.make man/CMakeFiles/man.dir/build make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' [ 12%] Generating info page cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/docs && /usr/bin/makeinfo --no-split -o /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/docs/physamp.info /build/reproducible-path/physamp-1.1.0/docs/physamp.texi [ 25%] Building CXX object physamp/CMakeFiles/bppphysamp.dir/PhyloSampler.cpp.o [ 37%] Building CXX object physamp/CMakeFiles/bppalnoptim.dir/AlignmentOptimizer.cpp.o cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/physamp && /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/physamp-1.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT physamp/CMakeFiles/bppphysamp.dir/PhyloSampler.cpp.o -MF CMakeFiles/bppphysamp.dir/PhyloSampler.cpp.o.d -o CMakeFiles/bppphysamp.dir/PhyloSampler.cpp.o -c /build/reproducible-path/physamp-1.1.0/physamp/PhyloSampler.cpp cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/physamp && /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/physamp-1.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT physamp/CMakeFiles/bppalnoptim.dir/AlignmentOptimizer.cpp.o -MF CMakeFiles/bppalnoptim.dir/AlignmentOptimizer.cpp.o.d -o CMakeFiles/bppalnoptim.dir/AlignmentOptimizer.cpp.o -c /build/reproducible-path/physamp-1.1.0/physamp/AlignmentOptimizer.cpp [ 50%] Compressing manpage bppalnoptim.1 cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/man && /usr/bin/gzip -c9n /build/reproducible-path/physamp-1.1.0/man/bppalnoptim.1 > /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/man/bppalnoptim.1.gz [ 62%] Compressing manpage bppphysamp.1 cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/man && /usr/bin/gzip -c9n /build/reproducible-path/physamp-1.1.0/man/bppphysamp.1 > /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/man/bppphysamp.1.gz make[3]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' [ 62%] Built target man [ 75%] Compressing info page cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/docs && /usr/bin/gzip -c9n /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/docs/physamp.info > /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/docs/physamp.info.gz make[3]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' [ 75%] Built target info /build/reproducible-path/physamp-1.1.0/physamp/AlignmentOptimizer.cpp: In function 'int main(int, char**)': /build/reproducible-path/physamp-1.1.0/physamp/AlignmentOptimizer.cpp:444:13: warning: catching polymorphic type 'class bpp::SequenceNotFoundException' by value [-Wcatch-value=] 444 | } catch(SequenceNotFoundException) { | ^~~~~~~~~~~~~~~~~~~~~~~~~ [ 87%] Linking CXX executable bppphysamp cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/physamp && /usr/bin/cmake -E cmake_link_script CMakeFiles/bppphysamp.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/physamp-1.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic -Wl,--dependency-file=CMakeFiles/bppphysamp.dir/link.d CMakeFiles/bppphysamp.dir/PhyloSampler.cpp.o -o bppphysamp /usr/lib/x86_64-linux-gnu/libbpp-phyl.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-seq.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-core.so.4.1.0 make[3]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' [ 87%] Built target bppphysamp [100%] Linking CXX executable bppalnoptim cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/physamp && /usr/bin/cmake -E cmake_link_script CMakeFiles/bppalnoptim.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/physamp-1.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -rdynamic -Wl,--dependency-file=CMakeFiles/bppalnoptim.dir/link.d CMakeFiles/bppalnoptim.dir/AlignmentOptimizer.cpp.o -o bppalnoptim /usr/lib/x86_64-linux-gnu/libbpp-phyl.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-seq.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-core.so.4.1.0 make[3]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' [100%] Built target bppalnoptim make[2]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/physamp/ cd obj-x86_64-linux-gnu && make -j12 install DESTDIR=/build/reproducible-path/physamp-1.1.0/debian/physamp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/physamp-1.1.0 -B/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/reproducible-path/physamp-1.1.0/debian/physamp/usr/bin/bppalnoptim -- Installing: /build/reproducible-path/physamp-1.1.0/debian/physamp/usr/bin/bppphysamp -- Installing: /build/reproducible-path/physamp-1.1.0/debian/physamp/usr/share/info/physamp.info.gz -- Installing: /build/reproducible-path/physamp-1.1.0/debian/physamp/usr/share/man/man1/bppalnoptim.1.gz -- Installing: /build/reproducible-path/physamp-1.1.0/debian/physamp/usr/share/man/man1/bppphysamp.1.gz make[1]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' dh_installdocs dh_installchangelogs dh_installexamples dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'physamp' in '../physamp_1.1.0-5_amd64.deb'. dpkg-deb: building package 'physamp-dbgsym' in '../physamp-dbgsym_1.1.0-5_amd64.deb'. dpkg-genbuildinfo --build=binary -O../physamp_1.1.0-5_amd64.buildinfo dpkg-genchanges --build=binary -O../physamp_1.1.0-5_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/1968443/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/1968443/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/1968443 and its subdirectories I: Current time: Sat Mar 28 05:23:52 +14 2026 I: pbuilder-time-stamp: 1774625032 + false + set +x Fri Mar 27 15:23:52 UTC 2026 I: Signing ./b2/physamp_1.1.0-5_amd64.buildinfo as physamp_1.1.0-5_amd64.buildinfo.asc Fri Mar 27 15:23:52 UTC 2026 I: Signed ./b2/physamp_1.1.0-5_amd64.buildinfo as ./b2/physamp_1.1.0-5_amd64.buildinfo.asc Fri Mar 27 15:23:52 UTC 2026 - build #2 for physamp/trixie/amd64 on infom02-amd64 done. Starting cleanup. All cleanup done. Fri Mar 27 15:23:52 UTC 2026 - reproducible_build.sh stopped running as /tmp/jenkins-script-rF58iUQj, removing. /srv/reproducible-results/rbuild-debian/r-b-build.jDbhUzfq: total 68 drwxr-xr-x 2 jenkins jenkins 4096 Feb 22 08:58 b1 drwxr-xr-x 2 jenkins jenkins 4096 Feb 22 09:00 b2 -rw-r--r-- 1 jenkins jenkins 2001 Mar 26 2024 physamp_1.1.0-5.dsc -rw------- 1 jenkins jenkins 50152 Feb 22 08:58 rbuildlog.Em7pmvl /srv/reproducible-results/rbuild-debian/r-b-build.jDbhUzfq/b1: total 1556 -rw-r--r-- 1 jenkins jenkins 46764 Feb 22 08:58 build.log -rw-r--r-- 1 jenkins jenkins 1311260 Feb 22 08:58 physamp-dbgsym_1.1.0-5_amd64.deb -rw-r--r-- 1 jenkins jenkins 3924 Feb 22 08:58 physamp_1.1.0-5.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2001 Feb 22 08:58 physamp_1.1.0-5.dsc -rw-r--r-- 1 jenkins jenkins 6433 Feb 22 08:58 physamp_1.1.0-5_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 7315 Feb 22 08:58 physamp_1.1.0-5_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1521 Feb 22 08:58 physamp_1.1.0-5_amd64.changes -rw-r--r-- 1 jenkins jenkins 188016 Feb 22 08:58 physamp_1.1.0-5_amd64.deb -rw-r--r-- 1 jenkins jenkins 1371 Feb 22 08:58 physamp_1.1.0-5_source.changes /srv/reproducible-results/rbuild-debian/r-b-build.jDbhUzfq/b2: total 1548 -rw-r--r-- 1 jenkins jenkins 48699 Feb 22 09:00 build.log -rw-r--r-- 1 jenkins jenkins 1311260 Feb 22 09:00 physamp-dbgsym_1.1.0-5_amd64.deb -rw-r--r-- 1 jenkins jenkins 3924 Feb 22 09:00 physamp_1.1.0-5.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2001 Feb 22 09:00 physamp_1.1.0-5.dsc -rw-r--r-- 1 jenkins jenkins 6436 Feb 22 09:00 physamp_1.1.0-5_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 7318 Feb 22 09:00 physamp_1.1.0-5_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1521 Feb 22 09:00 physamp_1.1.0-5_amd64.changes -rw-r--r-- 1 jenkins jenkins 188016 Feb 22 09:00 physamp_1.1.0-5_amd64.deb -rw-r--r-- 1 jenkins jenkins 1371 Feb 22 09:00 physamp_1.1.0-5_source.changes Sat Feb 22 09:00:53 UTC 2025 I: Deleting $TMPDIR on infom02-amd64.debian.net. Sat Feb 22 09:00:54 UTC 2025 I: physamp_1.1.0-5_amd64.changes: Format: 1.8 Date: Mon, 25 Mar 2024 18:59:54 +0100 Source: physamp Binary: physamp physamp-dbgsym Architecture: amd64 Version: 1.1.0-5 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Michael R. Crusoe Description: physamp - sample sequence alignment corresponding to phylogeny Changes: physamp (1.1.0-5) unstable; urgency=medium . * Team upload. * d/patches/unforce-cxxflags.patch: merge with upstream's flags, especially -std=c++11; forward our patch to upstream. * r/rules: enable full hardening * Standards-Version: 4.6.2 (routine-update) Checksums-Sha1: 5d08e5913b4d6e32efdfbc3c0ad8c6d39864773c 1311260 physamp-dbgsym_1.1.0-5_amd64.deb e79d495637e51f8a2fec589a578e0bcfebeb64fb 6433 physamp_1.1.0-5_amd64.buildinfo dbc513f181cefc477e0382bdac3de15cb3f4b347 188016 physamp_1.1.0-5_amd64.deb Checksums-Sha256: 9aacaf11e14d843e723123935b15de8b3205a25c3cc59970f657b872d62b539f 1311260 physamp-dbgsym_1.1.0-5_amd64.deb 79acd44975f2df4559143f998e119ea9e276d51372f796ad0f95221acb7430fd 6433 physamp_1.1.0-5_amd64.buildinfo a30ac7846b320943aa35e3744670241b45f9538b518e6ae64a508f6df948673c 188016 physamp_1.1.0-5_amd64.deb Files: 7694cd679fce43453f52a2dc03169055 1311260 debug optional physamp-dbgsym_1.1.0-5_amd64.deb 958b34ff5a6cfd9bf8188d7af9927d87 6433 science optional physamp_1.1.0-5_amd64.buildinfo f08e0bd1c1c99a52cac7f46472001ad9 188016 science optional physamp_1.1.0-5_amd64.deb removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/trixie/amd64/physamp_1.1.0-5.rbuild.log' removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/trixie/amd64/physamp_1.1.0-5.rbuild.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/trixie/amd64/physamp_1.1.0-5.build1.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/trixie/amd64/physamp_1.1.0-5.build2.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/buildinfo/trixie/amd64/physamp_1.1.0-5_amd64.buildinfo' removed '/var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/amd64/physamp_1.1.0-5.diff.gz' Diff of the two buildlogs: -- --- b1/build.log 2025-02-22 08:58:16.213449614 +0000 +++ b2/build.log 2025-02-22 09:00:53.550370378 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Fri Feb 21 20:56:13 -12 2025 -I: pbuilder-time-stamp: 1740214573 +I: Current time: Sat Mar 28 05:21:19 +14 2026 +I: pbuilder-time-stamp: 1774624879 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -24,51 +24,83 @@ dpkg-source: info: applying unforce-cxxflags.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/2435468/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/1968443/tmp/hooks/D01_modify_environment starting +debug: Running on infom02-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 Mar 27 15:21 /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/1968443/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/1968443/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' + 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=12 ' - DISTRIBUTION='trixie' - HOME='/root' - HOST_ARCH='amd64' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='6c3bd51d98a849a5b5b34ceae6fed651' - 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='2435468' - PS1='# ' - PS2='> ' + INVOCATION_ID=71d524c639784caca670a2c368d1797f + 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=1968443 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.jDbhUzfq/pbuilderrc_0r4m --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.jDbhUzfq/b1 --logfile b1/build.log physamp_1.1.0-5.dsc' - SUDO_GID='109' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' + 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.jDbhUzfq/pbuilderrc_mMgO --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.jDbhUzfq/b2 --logfile b2/build.log physamp_1.1.0-5.dsc' + SUDO_GID=109 + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' I: uname -a - Linux infom01-amd64 6.1.0-31-cloud-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.128-1 (2025-02-07) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.12.9+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.9-1~bpo12+1 (2025-01-19) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/2435468/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/1968443/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -187,7 +219,7 @@ Get: 75 http://deb.debian.org/debian trixie/main amd64 tex-common all 6.18 [32.5 kB] Get: 76 http://deb.debian.org/debian trixie/main amd64 texinfo-lib amd64 7.1.1-1+b1 [232 kB] Get: 77 http://deb.debian.org/debian trixie/main amd64 texinfo all 7.1.1-1 [1753 kB] -Fetched 50.8 MB in 2s (30.7 MB/s) +Fetched 50.8 MB in 2s (32.0 MB/s) Preconfiguring packages ... Selecting previously unselected package libproc2-0:amd64. (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 ... 19858 files and directories currently installed.) @@ -519,7 +551,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/physamp-1.1.0/ && 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 > ../physamp_1.1.0-5_source.changes +I: user script /srv/workspace/pbuilder/1968443/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/1968443/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/physamp-1.1.0/ && 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 > ../physamp_1.1.0-5_source.changes dpkg-buildpackage: info: source package physamp dpkg-buildpackage: info: source version 1.1.0-5 dpkg-buildpackage: info: source distribution unstable @@ -565,7 +601,7 @@ -- includes: /usr/include -- Found makeinfo as '/usr/bin/makeinfo': 'info' and 'html' target enabled (builds info/html doc) -- Found texi2dvi: 'pdf' target enabled (builds pdf doc) --- Configuring done (0.5s) +-- Configuring done (1.4s) -- Generating done (0.0s) CMake Warning: Manually-specified variables were not used by the project: @@ -584,37 +620,37 @@ make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make -f physamp/CMakeFiles/bppalnoptim.dir/build.make physamp/CMakeFiles/bppalnoptim.dir/depend -make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make -f physamp/CMakeFiles/bppphysamp.dir/build.make physamp/CMakeFiles/bppphysamp.dir/depend +make -f docs/CMakeFiles/info.dir/build.make docs/CMakeFiles/info.dir/depend +make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/physamp-1.1.0 /build/reproducible-path/physamp-1.1.0/physamp /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/physamp /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/physamp/CMakeFiles/bppalnoptim.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' -make -f docs/CMakeFiles/info.dir/build.make docs/CMakeFiles/info.dir/depend -cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/physamp-1.1.0 /build/reproducible-path/physamp-1.1.0/physamp /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/physamp /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/physamp/CMakeFiles/bppphysamp.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' -make -f man/CMakeFiles/man.dir/build.make man/CMakeFiles/man.dir/depend cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/physamp-1.1.0 /build/reproducible-path/physamp-1.1.0/docs /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/docs /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/docs/CMakeFiles/info.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/physamp-1.1.0 /build/reproducible-path/physamp-1.1.0/physamp /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/physamp /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/physamp/CMakeFiles/bppphysamp.dir/DependInfo.cmake "--color=" +make -f man/CMakeFiles/man.dir/build.make man/CMakeFiles/man.dir/depend make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/physamp-1.1.0 /build/reproducible-path/physamp-1.1.0/man /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/man /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/man/CMakeFiles/man.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' -make -f man/CMakeFiles/man.dir/build.make man/CMakeFiles/man.dir/build +make -f docs/CMakeFiles/info.dir/build.make docs/CMakeFiles/info.dir/build +make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' +make -f physamp/CMakeFiles/bppphysamp.dir/build.make physamp/CMakeFiles/bppphysamp.dir/build make[3]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' make -f physamp/CMakeFiles/bppalnoptim.dir/build.make physamp/CMakeFiles/bppalnoptim.dir/build -make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' -make -f physamp/CMakeFiles/bppphysamp.dir/build.make physamp/CMakeFiles/bppphysamp.dir/build make[3]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' +make -f man/CMakeFiles/man.dir/build.make man/CMakeFiles/man.dir/build make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' -make -f docs/CMakeFiles/info.dir/build.make docs/CMakeFiles/info.dir/build make[3]: Entering directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' [ 12%] Generating info page cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/docs && /usr/bin/makeinfo --no-split -o /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/docs/physamp.info /build/reproducible-path/physamp-1.1.0/docs/physamp.texi -[ 25%] Compressing manpage bppalnoptim.1 -cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/man && /usr/bin/gzip -c9n /build/reproducible-path/physamp-1.1.0/man/bppalnoptim.1 > /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/man/bppalnoptim.1.gz -[ 37%] Building CXX object physamp/CMakeFiles/bppphysamp.dir/PhyloSampler.cpp.o -[ 50%] Building CXX object physamp/CMakeFiles/bppalnoptim.dir/AlignmentOptimizer.cpp.o -cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/physamp && /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/physamp-1.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT physamp/CMakeFiles/bppalnoptim.dir/AlignmentOptimizer.cpp.o -MF CMakeFiles/bppalnoptim.dir/AlignmentOptimizer.cpp.o.d -o CMakeFiles/bppalnoptim.dir/AlignmentOptimizer.cpp.o -c /build/reproducible-path/physamp-1.1.0/physamp/AlignmentOptimizer.cpp +[ 25%] Building CXX object physamp/CMakeFiles/bppphysamp.dir/PhyloSampler.cpp.o +[ 37%] Building CXX object physamp/CMakeFiles/bppalnoptim.dir/AlignmentOptimizer.cpp.o cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/physamp && /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/physamp-1.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT physamp/CMakeFiles/bppphysamp.dir/PhyloSampler.cpp.o -MF CMakeFiles/bppphysamp.dir/PhyloSampler.cpp.o.d -o CMakeFiles/bppphysamp.dir/PhyloSampler.cpp.o -c /build/reproducible-path/physamp-1.1.0/physamp/PhyloSampler.cpp +cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/physamp && /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/physamp-1.1.0=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIE -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT physamp/CMakeFiles/bppalnoptim.dir/AlignmentOptimizer.cpp.o -MF CMakeFiles/bppalnoptim.dir/AlignmentOptimizer.cpp.o.d -o CMakeFiles/bppalnoptim.dir/AlignmentOptimizer.cpp.o -c /build/reproducible-path/physamp-1.1.0/physamp/AlignmentOptimizer.cpp +[ 50%] Compressing manpage bppalnoptim.1 +cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/man && /usr/bin/gzip -c9n /build/reproducible-path/physamp-1.1.0/man/bppalnoptim.1 > /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/man/bppalnoptim.1.gz [ 62%] Compressing manpage bppphysamp.1 cd /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/man && /usr/bin/gzip -c9n /build/reproducible-path/physamp-1.1.0/man/bppphysamp.1 > /build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu/man/bppphysamp.1.gz make[3]: Leaving directory '/build/reproducible-path/physamp-1.1.0/obj-x86_64-linux-gnu' @@ -687,12 +723,14 @@ 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/1968443/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/1968443/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/2435468 and its subdirectories -I: Current time: Fri Feb 21 20:58:15 -12 2025 -I: pbuilder-time-stamp: 1740214695 +I: removing directory /srv/workspace/pbuilder/1968443 and its subdirectories +I: Current time: Sat Mar 28 05:23:52 +14 2026 +I: pbuilder-time-stamp: 1774625032 Compressing the 2nd log... /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/amd64/physamp_1.1.0-5.diff: 77.3% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/amd64/physamp_1.1.0-5.diff.gz b2/build.log: 79.6% -- replaced with stdout Compressing the 1st log... b1/build.log: 80.2% -- replaced with stdout Sat Feb 22 09:00:55 UTC 2025 I: diffoscope 289 will be used to compare the two builds: ++ date -u +%s + DIFFOSCOPE_STAMP=/var/log/reproducible-builds/diffoscope_stamp_physamp_trixie_amd64_1740214855 + touch /var/log/reproducible-builds/diffoscope_stamp_physamp_trixie_amd64_1740214855 + RESULT=0 + systemd-run '--description=diffoscope on physamp/1.1.0-5 in trixie/amd64' --slice=rb-build-diffoscope.slice -u rb-diffoscope-amd64_33-50540 '--property=SuccessExitStatus=1 124' --user --send-sighup --pipe --wait -E TMPDIR timeout 155m nice schroot --directory /srv/reproducible-results/rbuild-debian/r-b-build.jDbhUzfq --run-session -c jenkins-reproducible-trixie-diffoscope-65fc7314-d2bd-4726-b755-f68424fe9bc8 -- sh -c 'export TMPDIR=/srv/reproducible-results/rbuild-debian/r-b-build.jDbhUzfq/dbd-tmp-ODLmE7h ; timeout 150m diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.jDbhUzfq/physamp_1.1.0-5.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.jDbhUzfq/physamp_1.1.0-5.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.jDbhUzfq/physamp_1.1.0-5.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.jDbhUzfq/b1/physamp_1.1.0-5_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.jDbhUzfq/b2/physamp_1.1.0-5_amd64.changes' + false + set +x Running as unit: rb-diffoscope-amd64_33-50540.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.jDbhUzfq/physamp_1.1.0-5.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.jDbhUzfq/physamp_1.1.0-5.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.jDbhUzfq/physamp_1.1.0-5.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.jDbhUzfq/b1/physamp_1.1.0-5_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.jDbhUzfq/b2/physamp_1.1.0-5_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: 231ms CPU time consumed: 232ms _ _ __ | |__ _ _ ___ __ _ _ __ ___ _ __ | '_ \| '_ \| | | / __|/ _` | '_ ` _ \| '_ \ | |_) | | | | |_| \__ \ (_| | | | | | | |_) | | .__/|_| |_|\__, |___/\__,_|_| |_| |_| .__/ |_| |___/ |_| Sat Feb 22 09:00:55 UTC 2025 I: diffoscope 289 found no differences in the changes files, and a .buildinfo file also exists. Sat Feb 22 09:00:55 UTC 2025 I: physamp from trixie built successfully and reproducibly on amd64. INSERT 0 1 INSERT 0 1 DELETE 1 [2025-02-22 09:00:56] INFO: Starting at 2025-02-22 09:00:56.572355 [2025-02-22 09:00:56] INFO: Generating the pages of 1 package(s) [2025-02-22 09:00:56] CRITICAL: https://tests.reproducible-builds.org/debian/trixie/amd64/physamp didn't produce a buildlog, even though it has been built. [2025-02-22 09:00:57] INFO: Finished at 2025-02-22 09:00:57.092863, took: 0:00:00.520514 Sat Feb 22 09:00:57 UTC 2025 - successfully updated the database and updated https://tests.reproducible-builds.org/debian/rb-pkg/trixie/amd64/physamp.html Sat Feb 22 09:00:57 UTC 2025 I: Submitting .buildinfo files to external archives: Sat Feb 22 09:00:57 UTC 2025 I: Submitting 8.0K b1/physamp_1.1.0-5_amd64.buildinfo.asc https://buildinfo.debian.net/e79d495637e51f8a2fec589a578e0bcfebeb64fb/physamp_1.1.0-5_amd64 Sat Feb 22 09:00:57 UTC 2025 I: Submitting 8.0K b2/physamp_1.1.0-5_amd64.buildinfo.asc https://buildinfo.debian.net/3cbb5941c157ffcb46cc740658c1913d164f1419/physamp_1.1.0-5_amd64 Sat Feb 22 09:00:58 UTC 2025 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sat Feb 22 09:00:58 UTC 2025 I: Done submitting .buildinfo files. Sat Feb 22 09:00:58 UTC 2025 I: Removing signed physamp_1.1.0-5_amd64.buildinfo.asc files: removed './b1/physamp_1.1.0-5_amd64.buildinfo.asc' removed './b2/physamp_1.1.0-5_amd64.buildinfo.asc' 1740214858 amd64 trixie physamp Starting cleanup. /var/lib/jenkins/userContent/reproducible/debian/rbuild/trixie/amd64/physamp_1.1.0-5.rbuild.log: 77.2% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/rbuild/trixie/amd64/physamp_1.1.0-5.rbuild.log.gz [2025-02-22 09:00:59] INFO: Starting at 2025-02-22 09:00:59.035876 [2025-02-22 09:00:59] INFO: Generating the pages of 1 package(s) [2025-02-22 09:00:59] INFO: Finished at 2025-02-22 09:00:59.602002, took: 0:00:00.566134 All cleanup done. Sat Feb 22 09:00:59 UTC 2025 - total duration: 0h 5m 7s. Sat Feb 22 09:00:59 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-EbW5hH5T, removing. Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 5min 11.508s CPU time consumed: 7.735s