Mon Mar 17 15:15:01 UTC 2025 I: starting to build bppsuite/trixie/amd64 on jenkins on '2025-03-17 15:14' Mon Mar 17 15:15:01 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_32/36126/console.log Mon Mar 17 15:15:01 UTC 2025 I: Downloading source for trixie/bppsuite=2.4.1-7 --2025-03-17 15:15:01-- http://deb.debian.org/debian/pool/main/b/bppsuite/bppsuite_2.4.1-7.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2186 (2.1K) [text/prs.lines.tag] Saving to: ‘bppsuite_2.4.1-7.dsc’ 0K .. 100% 321M=0s 2025-03-17 15:15:01 (321 MB/s) - ‘bppsuite_2.4.1-7.dsc’ saved [2186/2186] Mon Mar 17 15:15:01 UTC 2025 I: bppsuite_2.4.1-7.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: bppsuite Binary: bppsuite, bppsuite-examples Architecture: any all Version: 2.4.1-7 Maintainer: Debian Med Packaging Team Uploaders: Julien Dutheil , Andreas Tille , Pranav Ballaney Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/bppsuite Vcs-Git: https://salsa.debian.org/med-team/bppsuite.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), cmake, texinfo, libbpp-phyl-dev, libbpp-popgen-dev, libeigen3-dev Package-List: bppsuite deb science optional arch=any bppsuite-examples deb science optional arch=all Checksums-Sha1: 7ca13e39f3db596709d5eac1abee2f18c5147966 214404 bppsuite_2.4.1.orig.tar.gz 4bd356e30aef34519aaeff7b006c36bc136989d0 69720 bppsuite_2.4.1-7.debian.tar.xz Checksums-Sha256: 0485adcc17e37439069d27e4fac144e5ae38036ba21f31e6d21f070ce4ea5199 214404 bppsuite_2.4.1.orig.tar.gz 14858b0ca40e6bbcac5783affc8c5fac2cc2ccc1dc963332862955b2d492795d 69720 bppsuite_2.4.1-7.debian.tar.xz Files: d254ffd9e121b408aed36f49e62920d1 214404 bppsuite_2.4.1.orig.tar.gz 44a3af480a15b8e93053ed3c34b51b82 69720 bppsuite_2.4.1-7.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEck1gkzcRPHEFUNdHPCZ2P2xn5uIFAmYButQACgkQPCZ2P2xn 5uJkeRAAp+d9lpoDCUCQTV1yMNvgMkuNSJZ9QG3jVMhWLbUaCkUrfntrJmn3aUpV qQMLFB+wype9gbxEQUi49VcCZl+0CbOSVQ5lB1sXAQ60zlrbXWrjooSQsbntpjWJ mYX+llGYJpiyXqXTVo4adAmC65SkyWFcN2y2Kudpu6oRJGEWThv+3cGB2r+UBsY9 CfwbhV65GftsAPDSQIFUExY84eVDea/smKZrN/iPJhbjIZTDGkhC0+sebfNgy6nu dG0Iml8szwPU0YqSrEZvrz5I9Exq9mgqu9omp9D+3cJ41UpRwssBgqmRjJegha1r 029CNfCSh2UaN3Iov5OpolaV6WoSj6qWBpAqceRca8KqCuIUYTTjpHBjvQzkirdW apui/NCuTKUUEOJDucV3o3rlyfs15FqqMKevizVwWjVqNMVKD64z4XUFsIDbRwv9 G1H7rjVhrTp1fYD7tzb/mYgI9W4E/AgKygZBXbPl4uEJIkBWUxMvgnzuM99BnR1t LM3AzGO/XTqEHtcbgnZ1iWzO0oVMrFPi+4HQbcVK0IASMpM/JZqyDPgXuKfX8Gwl sOFJgFP3tFV9x97VIKExdMpyLR6bEdtSgsBTVd4lG53TLYN/x8tSITL6h6uEG2gk ETRnrmESsKSEEsMmtN8jtrGII6ChMGv2jtAecANV10DolDYrCNs= =1FZU -----END PGP SIGNATURE----- Mon Mar 17 15:15:01 UTC 2025 I: Checking whether the package is not for us Mon Mar 17 15:15:01 UTC 2025 I: Starting 1st build on remote node ionos5-amd64.debian.net. Mon Mar 17 15:15:01 UTC 2025 I: Preparing to do remote build '1' on ionos5-amd64.debian.net. Mon Mar 17 15:17:02 UTC 2025 I: Deleting $TMPDIR on ionos5-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sun Apr 19 09:38:03 -12 2026 I: pbuilder-time-stamp: 1776634683 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 [bppsuite_2.4.1-7.dsc] I: copying [./bppsuite_2.4.1.orig.tar.gz] I: copying [./bppsuite_2.4.1-7.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./bppsuite_2.4.1-7.dsc: unsupported subcommand dpkg-source: info: extracting bppsuite in bppsuite-2.4.1 dpkg-source: info: unpacking bppsuite_2.4.1.orig.tar.gz dpkg-source: info: unpacking bppsuite_2.4.1-7.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying spelling dpkg-source: info: applying hardening I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2492046/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=42 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='e1c0d242791e45e0899a5572fdc51e4e' 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='2492046' 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.qUgOK1iE/pbuilderrc_vVE5 --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.qUgOK1iE/b1 --logfile b1/build.log bppsuite_2.4.1-7.dsc' SUDO_GID='110' SUDO_UID='105' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://213.165.73.152:3128' I: uname -a Linux ionos5-amd64 6.12.12+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.12-1~bpo12+1 (2025-02-23) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Mar 4 2025 /bin -> usr/bin I: user script /srv/workspace/pbuilder/2492046/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, libbpp-popgen-dev, libeigen3-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 ... 19803 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. pbuilder-satisfydepends-dummy depends on libbpp-popgen-dev; however: Package libbpp-popgen-dev is not installed. pbuilder-satisfydepends-dummy depends on libeigen3-dev; however: Package libeigen3-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-popgen-dev{a} libbpp-popgen8t64{a} libbpp-seq-dev{a} libbpp-seq12t64{a} libbrotli1{a} libcom-err2{a} libcurl4t64{a} libdebhelper-perl{a} libeigen3-dev{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} libpkgconf3{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} pkg-config{a} pkgconf{a} pkgconf-bin{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, 84 newly installed, 0 to remove and 0 not upgraded. Need to get 52.6 MB of archives. After unpacking 246 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 2.40.4-5 [92.4 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 3.0050 [42.7 kB] Get: 16 http://deb.debian.org/debian trixie/main amd64 m4 amd64 1.4.19-7 [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 3.31.6-1 [2268 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+b2 [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+b7 [307 kB] Get: 26 http://deb.debian.org/debian trixie/main amd64 libkrb5support0 amd64 1.21.3-5 [33.0 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 1.21.3-5 [81.5 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 1.21.3-5 [326 kB] Get: 31 http://deb.debian.org/debian trixie/main amd64 libgssapi-krb5-2 amd64 1.21.3-5 [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 2.3.8-1 [109 kB] Get: 34 http://deb.debian.org/debian trixie/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-9 [19.8 kB] Get: 35 http://deb.debian.org/debian trixie/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-9 [57.5 kB] Get: 36 http://deb.debian.org/debian trixie/main amd64 libldap2 amd64 2.6.9+dfsg-2 [194 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 1.8.0-1 [67.7 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 8.12.1-3 [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 3.31.6-1 [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 2.5.4-4 [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 libbpp-popgen8t64 amd64 2.4.1-11+b2 [244 kB] Get: 71 http://deb.debian.org/debian trixie/main amd64 libbpp-popgen-dev amd64 2.4.1-11+b2 [313 kB] Get: 72 http://deb.debian.org/debian trixie/main amd64 libpkgconf3 amd64 1.8.1-4 [36.4 kB] Get: 73 http://deb.debian.org/debian trixie/main amd64 pkgconf-bin amd64 1.8.1-4 [30.2 kB] Get: 74 http://deb.debian.org/debian trixie/main amd64 pkgconf amd64 1.8.1-4 [26.2 kB] Get: 75 http://deb.debian.org/debian trixie/main amd64 pkg-config amd64 1.8.1-4 [14.0 kB] Get: 76 http://deb.debian.org/debian trixie/main amd64 libeigen3-dev all 3.4.0-4 [1041 kB] Get: 77 http://deb.debian.org/debian trixie/main amd64 libtext-unidecode-perl all 1.30-3 [101 kB] Get: 78 http://deb.debian.org/debian trixie/main amd64 libxml-namespacesupport-perl all 1.12-2 [15.1 kB] Get: 79 http://deb.debian.org/debian trixie/main amd64 libxml-sax-base-perl all 1.09-3 [20.6 kB] Get: 80 http://deb.debian.org/debian trixie/main amd64 libxml-sax-perl all 1.02+dfsg-4 [53.4 kB] Get: 81 http://deb.debian.org/debian trixie/main amd64 libxml-libxml-perl amd64 2.0207+dfsg+really+2.0134-5+b2 [314 kB] Get: 82 http://deb.debian.org/debian trixie/main amd64 tex-common all 6.19 [29.4 kB] Get: 83 http://deb.debian.org/debian trixie/main amd64 texinfo-lib amd64 7.1.1-1+b1 [232 kB] Get: 84 http://deb.debian.org/debian trixie/main amd64 texinfo all 7.1.1-1 [1753 kB] Fetched 52.6 MB in 2s (29.9 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 ... 19803 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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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 (8.12.1-3) ... Setting up debhelper (13.24.1) ... Setting up texinfo (7.1.1-1) ... Setting up cmake (3.31.6-1) ... Processing triggers for libc-bin (2.41-4) ... 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/bppsuite-2.4.1/ && 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 > ../bppsuite_2.4.1-7_source.changes dpkg-buildpackage: info: source package bppsuite dpkg-buildpackage: info: source version 2.4.1-7 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:7 (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 -- bpp-popgen 8.0.0 found: -- static lib: /usr/lib/x86_64-linux-gnu/libbpp-popgen.a -- shared lib: /usr/lib/x86_64-linux-gnu/libbpp-popgen.so.8.0.0 -- includes: /usr/include -- Found /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/bppsuite-2.4.1/obj-x86_64-linux-gnu dh_auto_build cd obj-x86_64-linux-gnu && make -j42 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/bppsuite-2.4.1 -B/build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu' make -f bppSuite/CMakeFiles/bppml.dir/build.make bppSuite/CMakeFiles/bppml.dir/depend make -f bppSuite/CMakeFiles/bppseqgen.dir/build.make bppSuite/CMakeFiles/bppseqgen.dir/depend make -f bppSuite/CMakeFiles/bppdist.dir/build.make bppSuite/CMakeFiles/bppdist.dir/depend make[3]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu' cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/bppsuite-2.4.1 /build/reproducible-path/bppsuite-2.4.1/bppSuite 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bppSuite/CMakeFiles/bppmixedlikelihoods.dir/bppMixedLikelihoods.cpp.o -MF CMakeFiles/bppmixedlikelihoods.dir/bppMixedLikelihoods.cpp.o.d -o CMakeFiles/bppmixedlikelihoods.dir/bppMixedLikelihoods.cpp.o -c /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppMixedLikelihoods.cpp cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/bppSuite && /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -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 bppSuite/CMakeFiles/bppreroot.dir/bppReRoot.cpp.o -MF CMakeFiles/bppreroot.dir/bppReRoot.cpp.o.d -o CMakeFiles/bppreroot.dir/bppReRoot.cpp.o -c /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppReRoot.cpp cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/bppSuite && /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -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 bppSuite/CMakeFiles/bppancestor.dir/bppAncestor.cpp.o -MF CMakeFiles/bppancestor.dir/bppAncestor.cpp.o.d -o CMakeFiles/bppancestor.dir/bppAncestor.cpp.o -c /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppAncestor.cpp [ 28%] Building CXX object bppSuite/CMakeFiles/bpptreedraw.dir/bppTreeDraw.cpp.o cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/doc && /usr/bin/makeinfo --no-split -o /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/doc/bppsuite.info /build/reproducible-path/bppsuite-2.4.1/doc/bppsuite.texi cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/bppSuite && /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -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 bppSuite/CMakeFiles/bpptreedraw.dir/bppTreeDraw.cpp.o -MF CMakeFiles/bpptreedraw.dir/bppTreeDraw.cpp.o.d -o CMakeFiles/bpptreedraw.dir/bppTreeDraw.cpp.o -c /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppTreeDraw.cpp [ 31%] Building CXX object bppSuite/CMakeFiles/bppalnscore.dir/bppAlnScore.cpp.o [ 36%] Compressing manpage bppalnscore.1 [ 34%] Building CXX object bppSuite/CMakeFiles/bpppopstats.dir/bppPopStats.cpp.o [ 39%] Compressing manpage bppml.1 cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/bppSuite && /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -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 bppSuite/CMakeFiles/bppalnscore.dir/bppAlnScore.cpp.o -MF CMakeFiles/bppalnscore.dir/bppAlnScore.cpp.o.d -o CMakeFiles/bppalnscore.dir/bppAlnScore.cpp.o -c /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppAlnScore.cpp cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/bppSuite && /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -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 bppSuite/CMakeFiles/bpppopstats.dir/bppPopStats.cpp.o -MF CMakeFiles/bpppopstats.dir/bppPopStats.cpp.o.d -o CMakeFiles/bpppopstats.dir/bppPopStats.cpp.o -c /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppPopStats.cpp cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/man && /usr/bin/gzip -c -n -9 /build/reproducible-path/bppsuite-2.4.1/man/bppml.1 > /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/man/bppml.1.gz [ 44%] Compressing manpage bppdist.1 [ 50%] Compressing manpage bppconsense.1 cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/man && /usr/bin/gzip -c -n -9 /build/reproducible-path/bppsuite-2.4.1/man/bppalnscore.1 > /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/man/bppalnscore.1.gz [ 42%] Compressing manpage bppancestor.1 cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/man && /usr/bin/gzip -c -n -9 /build/reproducible-path/bppsuite-2.4.1/man/bppancestor.1 > /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/man/bppancestor.1.gz [ 50%] Compressing manpage bpppars.1 [ 52%] Compressing manpage bppmixedlikelihoods.1 cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/man && /usr/bin/gzip -c -n -9 /build/reproducible-path/bppsuite-2.4.1/man/bppconsense.1 > /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/man/bppconsense.1.gz [ 60%] Compressing manpage bpppopstats.1 cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/man && /usr/bin/gzip -c -n -9 /build/reproducible-path/bppsuite-2.4.1/man/bppdist.1 > /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/man/bppdist.1.gz [ 57%] Compressing manpage bppseqman.1 [ 60%] Compressing manpage bppseqgen.1 cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/man && /usr/bin/gzip -c -n -9 /build/reproducible-path/bppsuite-2.4.1/man/bpppars.1 > /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/man/bpppars.1.gz [ 63%] Compressing manpage bpptreedraw.1 cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/man && /usr/bin/gzip -c -n -9 /build/reproducible-path/bppsuite-2.4.1/man/bppmixedlikelihoods.1 > /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/man/bppmixedlikelihoods.1.gz [ 65%] Compressing manpage bppreroot.1 cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/man && /usr/bin/gzip -c -n -9 /build/reproducible-path/bppsuite-2.4.1/man/bpppopstats.1 > /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/man/bpppopstats.1.gz cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/man && /usr/bin/gzip -c -n -9 /build/reproducible-path/bppsuite-2.4.1/man/bppreroot.1 > /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/man/bppreroot.1.gz cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/man && /usr/bin/gzip -c -n -9 /build/reproducible-path/bppsuite-2.4.1/man/bppseqgen.1 > /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/man/bppseqgen.1.gz cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/man && /usr/bin/gzip -c -n -9 /build/reproducible-path/bppsuite-2.4.1/man/bppseqman.1 > /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/man/bppseqman.1.gz cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/man && /usr/bin/gzip -c -n -9 /build/reproducible-path/bppsuite-2.4.1/man/bpptreedraw.1 > /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/man/bpptreedraw.1.gz make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu' [ 65%] Built target man [ 68%] Compressing info page cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/doc && /usr/bin/gzip -c -n -9 /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/doc/bppsuite.info > /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/doc/bppsuite.info.gz make[3]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu' [ 68%] Built target info [ 71%] Linking CXX executable bppalnscore cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/bppSuite && /usr/bin/cmake -E cmake_link_script CMakeFiles/bppalnscore.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time 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-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/bppconsense.dir/link.d CMakeFiles/bppconsense.dir/bppConsense.cpp.o -o bppconsense /usr/lib/x86_64-linux-gnu/libbpp-phyl.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-popgen.so.8.0.0 /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/bppsuite-2.4.1/obj-x86_64-linux-gnu' [ 76%] Built target bppconsense /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -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/bppseqman.dir/link.d CMakeFiles/bppseqman.dir/bppSeqMan.cpp.o -o bppseqman /usr/lib/x86_64-linux-gnu/libbpp-phyl.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-popgen.so.8.0.0 /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/bppsuite-2.4.1/obj-x86_64-linux-gnu' [ 76%] Built target bppseqman [ 78%] Linking CXX executable bpptreedraw cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/bppSuite && /usr/bin/cmake -E cmake_link_script CMakeFiles/bpptreedraw.dir/link.txt --verbose=1 [ 81%] Linking CXX executable bppreroot cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/bppSuite && /usr/bin/cmake -E cmake_link_script CMakeFiles/bppreroot.dir/link.txt --verbose=1 [ 84%] Linking CXX executable bpppars cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/bppSuite && /usr/bin/cmake -E cmake_link_script CMakeFiles/bpppars.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -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/bpptreedraw.dir/link.d CMakeFiles/bpptreedraw.dir/bppTreeDraw.cpp.o -o bpptreedraw /usr/lib/x86_64-linux-gnu/libbpp-phyl.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-popgen.so.8.0.0 /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/bppsuite-2.4.1/obj-x86_64-linux-gnu' [ 84%] Built target bpptreedraw /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -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/bppreroot.dir/link.d CMakeFiles/bppreroot.dir/bppReRoot.cpp.o -o bppreroot /usr/lib/x86_64-linux-gnu/libbpp-phyl.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-popgen.so.8.0.0 /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/bppsuite-2.4.1/obj-x86_64-linux-gnu' [ 84%] Built target bppreroot /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -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/bpppars.dir/link.d CMakeFiles/bpppars.dir/bppPars.cpp.o -o bpppars /usr/lib/x86_64-linux-gnu/libbpp-phyl.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-popgen.so.8.0.0 /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/bppsuite-2.4.1/obj-x86_64-linux-gnu' [ 84%] Built target bpppars [ 86%] Linking CXX executable bppmixedlikelihoods cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/bppSuite && 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/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -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/bppdist.dir/link.d CMakeFiles/bppdist.dir/bppDist.cpp.o -o bppdist /usr/lib/x86_64-linux-gnu/libbpp-phyl.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-popgen.so.8.0.0 /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/bppsuite-2.4.1/obj-x86_64-linux-gnu' [ 89%] Built target bppdist [ 92%] Linking CXX executable bppancestor cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/bppSuite && /usr/bin/cmake -E cmake_link_script CMakeFiles/bppancestor.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -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/bppancestor.dir/link.d CMakeFiles/bppancestor.dir/bppAncestor.cpp.o -o bppancestor /usr/lib/x86_64-linux-gnu/libbpp-phyl.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-popgen.so.8.0.0 /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/bppsuite-2.4.1/obj-x86_64-linux-gnu' [ 92%] Built target bppancestor [ 94%] Linking CXX executable bppseqgen cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/bppSuite && /usr/bin/cmake -E cmake_link_script CMakeFiles/bppseqgen.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -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/bppseqgen.dir/link.d CMakeFiles/bppseqgen.dir/bppSeqGen.cpp.o -o bppseqgen /usr/lib/x86_64-linux-gnu/libbpp-phyl.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-popgen.so.8.0.0 /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/bppsuite-2.4.1/obj-x86_64-linux-gnu' [ 94%] Built target bppseqgen [ 97%] Linking CXX executable bppml cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/bppSuite && /usr/bin/cmake -E cmake_link_script CMakeFiles/bppml.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -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/bppml.dir/link.d CMakeFiles/bppml.dir/bppML.cpp.o -o bppml /usr/lib/x86_64-linux-gnu/libbpp-phyl.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-popgen.so.8.0.0 /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/bppsuite-2.4.1/obj-x86_64-linux-gnu' [ 97%] Built target bppml [100%] Linking CXX executable bpppopstats cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/bppSuite && /usr/bin/cmake -E cmake_link_script CMakeFiles/bpppopstats.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/bppsuite-2.4.1=. -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/bpppopstats.dir/link.d CMakeFiles/bpppopstats.dir/bppPopStats.cpp.o -o bpppopstats /usr/lib/x86_64-linux-gnu/libbpp-phyl.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-popgen.so.8.0.0 /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/bppsuite-2.4.1/obj-x86_64-linux-gnu' [100%] Built target bpppopstats make[2]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install cd obj-x86_64-linux-gnu && make -j42 install DESTDIR=/build/reproducible-path/bppsuite-2.4.1/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/bppsuite-2.4.1 -B/build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/bin/bppml -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/bin/bppseqgen -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/bin/bppdist -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/bin/bpppars -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/bin/bppseqman -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/bin/bppconsense -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/bin/bppancestor -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/bin/bppmixedlikelihoods -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/bin/bppreroot -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/bin/bpptreedraw -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/bin/bppalnscore -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/bin/bpppopstats -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/share/info/bppsuite.info.gz -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/share/man/man1/bppalnscore.1.gz -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/share/man/man1/bppancestor.1.gz -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/share/man/man1/bppconsense.1.gz -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/share/man/man1/bppdist.1.gz -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/share/man/man1/bppmixedlikelihoods.1.gz -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/share/man/man1/bppml.1.gz -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/share/man/man1/bpppars.1.gz -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/share/man/man1/bpppopstats.1.gz -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/share/man/man1/bppreroot.1.gz -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/share/man/man1/bppseqgen.1.gz -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/share/man/man1/bppseqman.1.gz -- Installing: /build/reproducible-path/bppsuite-2.4.1/debian/tmp/usr/share/man/man1/bpptreedraw.1.gz make[1]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu' dh_install dh_installdocs dh_installchangelogs dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms debian/rules execute_after_dh_fixperms make[1]: Entering directory '/build/reproducible-path/bppsuite-2.4.1' find debian -name "*.dnd" -exec chmod -x \{\} \; make[1]: Leaving directory '/build/reproducible-path/bppsuite-2.4.1' 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 'bppsuite-dbgsym' in '../bppsuite-dbgsym_2.4.1-7_amd64.deb'. dpkg-deb: building package 'bppsuite' in '../bppsuite_2.4.1-7_amd64.deb'. dpkg-deb: building package 'bppsuite-examples' in '../bppsuite-examples_2.4.1-7_all.deb'. dpkg-genbuildinfo --build=binary -O../bppsuite_2.4.1-7_amd64.buildinfo dpkg-genchanges --build=binary -O../bppsuite_2.4.1-7_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/2492046 and its subdirectories I: Current time: Sun Apr 19 09:40:01 -12 2026 I: pbuilder-time-stamp: 1776634801 Mon Mar 17 15:17:03 UTC 2025 I: 1st build successful. Starting 2nd build on remote node ionos11-amd64.debian.net. Mon Mar 17 15:17:03 UTC 2025 I: Preparing to do remote build '2' on ionos11-amd64.debian.net. Mon Mar 17 15:19:13 UTC 2025 I: Deleting $TMPDIR on ionos11-amd64.debian.net. Mon Mar 17 15:19:13 UTC 2025 I: bppsuite_2.4.1-7_amd64.changes: Format: 1.8 Date: Mon, 25 Mar 2024 12:53:01 +0100 Source: bppsuite Binary: bppsuite bppsuite-dbgsym bppsuite-examples Architecture: amd64 all Version: 2.4.1-7 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Michael R. Crusoe Description: bppsuite - Bio++ program suite bppsuite-examples - Examples for Bio++ program suite Changes: bppsuite (2.4.1-7) unstable; urgency=medium . * Team upload. * d/patches/hardening: Added patch to not shadow dpkg-buildflags * d/rules: specifying RelWithDebInfo isn't necessary for getting unstripped binaries. * d/patches/spelling: new patch to fix typos. Checksums-Sha1: 7716849fb10e6ce0ae9bcf77e84ac27ba61741cc 6328400 bppsuite-dbgsym_2.4.1-7_amd64.deb e3ff2772284efffc6bdda61421d1869324a76c7e 227292 bppsuite-examples_2.4.1-7_all.deb 807815bb254fe02dd3d66d97a07892344adf9a8d 6926 bppsuite_2.4.1-7_amd64.buildinfo 4f3e0e8fe6b13931d2e1d25c8c383c92f6c66c49 392036 bppsuite_2.4.1-7_amd64.deb Checksums-Sha256: 9f3ddedd3b5981fd6b9be70e6d25094a754b204c327eca119ade50597d61c162 6328400 bppsuite-dbgsym_2.4.1-7_amd64.deb fc16a65da429d14239c13df206193da066262c6ea3f33864d3a573c461781629 227292 bppsuite-examples_2.4.1-7_all.deb 8b3302dc15af89f9060a18fa85cefaa531f3a6998139d18e23d2f57cf02303c7 6926 bppsuite_2.4.1-7_amd64.buildinfo b9fb522048c7a4b7441fa4c874c8992f60c8a9d750a711fb4f18223131d47ea1 392036 bppsuite_2.4.1-7_amd64.deb Files: 30fda1f7557a53c56e4e4128779ad3a2 6328400 debug optional bppsuite-dbgsym_2.4.1-7_amd64.deb 92d9dc06db629d633bc6533e4bcb3bfe 227292 science optional bppsuite-examples_2.4.1-7_all.deb 08c09656cdac2fb76ab5fb783c111499 6926 science optional bppsuite_2.4.1-7_amd64.buildinfo 23a10d07d800881d603c1806ef901ec5 392036 science optional bppsuite_2.4.1-7_amd64.deb Mon Mar 17 15:19:14 UTC 2025 I: diffoscope 289 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_32-36126.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.qUgOK1iE/bppsuite_2.4.1-7.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.qUgOK1iE/bppsuite_2.4.1-7.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.qUgOK1iE/bppsuite_2.4.1-7.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.qUgOK1iE/b1/bppsuite_2.4.1-7_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.qUgOK1iE/b2/bppsuite_2.4.1-7_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: 229ms CPU time consumed: 230ms Mon Mar 17 15:19:15 UTC 2025 I: diffoscope 289 found no differences in the changes files, and a .buildinfo file also exists. Mon Mar 17 15:19:15 UTC 2025 I: bppsuite from trixie built successfully and reproducibly on amd64. Mon Mar 17 15:19:16 UTC 2025 I: Submitting .buildinfo files to external archives: Mon Mar 17 15:19:16 UTC 2025 I: Submitting 8.0K b1/bppsuite_2.4.1-7_amd64.buildinfo.asc Mon Mar 17 15:19:17 UTC 2025 I: Submitting 8.0K b2/bppsuite_2.4.1-7_amd64.buildinfo.asc Mon Mar 17 15:19:18 UTC 2025 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Mon Mar 17 15:19:18 UTC 2025 I: Done submitting .buildinfo files. Mon Mar 17 15:19:18 UTC 2025 I: Removing signed bppsuite_2.4.1-7_amd64.buildinfo.asc files: removed './b1/bppsuite_2.4.1-7_amd64.buildinfo.asc' removed './b2/bppsuite_2.4.1-7_amd64.buildinfo.asc'