Wed Nov 5 09:37:30 UTC 2025 I: starting to build bppsuite/forky/amd64 on jenkins on '2025-11-05 09:37' Wed Nov 5 09:37:30 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_29/59841/console.log Wed Nov 5 09:37:30 UTC 2025 I: Downloading source for forky/bppsuite=2.4.1-8 --2025-11-05 09:37:30-- http://deb.debian.org/debian/pool/main/b/bppsuite/bppsuite_2.4.1-8.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 1841 (1.8K) [text/prs.lines.tag] Saving to: ‘bppsuite_2.4.1-8.dsc’ 0K . 100% 240M=0s 2025-11-05 09:37:30 (240 MB/s) - ‘bppsuite_2.4.1-8.dsc’ saved [1841/1841] Wed Nov 5 09:37:30 UTC 2025 I: bppsuite_2.4.1-8.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: bppsuite Binary: bppsuite, bppsuite-examples Architecture: any all Version: 2.4.1-8 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: 4.7.2 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 a900163bdcb22981a1912830aa35fced77a4163a 69892 bppsuite_2.4.1-8.debian.tar.xz Checksums-Sha256: 0485adcc17e37439069d27e4fac144e5ae38036ba21f31e6d21f070ce4ea5199 214404 bppsuite_2.4.1.orig.tar.gz 937425e6c24270031560481009afad8e99d714ca03206c78c09787c2c77df82e 69892 bppsuite_2.4.1-8.debian.tar.xz Files: d254ffd9e121b408aed36f49e62920d1 214404 bppsuite_2.4.1.orig.tar.gz 4f22a9ab1dc850c7499f97e0ef3edaf9 69892 bppsuite_2.4.1-8.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQEzBAEBCgAdFiEE1Uw7+v+wQt44LaXXQc5/C58bizIFAmjtqCYACgkQQc5/C58b izKq1wf/Rz0+YwGpVhNOKEIht4BNEpO2zVvX295I0CZ/eYsZLhT/lpeR0zgMYfVw B26OwNsqckLvQCaX5ysqK6lK4kekbu1u3QacjjYLrEkWHqdXZpasTCkhsKqklNmh hopxmwZeXI7Jz6p8tKwkxoTQ6TnTwePYL7kYKvEGYKpzvOftjDht2qV5eoN1hrB5 ClMwHf1AMSFqWMPjwvU8PqPgKyi+Coe60P+8NXO5RacXt+arKzDkxeLdJd0RGzYl EuuJWYsGHTYXNtpcbhWRBHudGXsziHjkJ3l9Rce0taGU+1VKZxw6eSIWmouoCqEX zGYnJhz4rLX+0/2cOll01fr4rMxtQg== =H1n8 -----END PGP SIGNATURE----- Wed Nov 5 09:37:30 UTC 2025 I: Checking whether the package is not for us Wed Nov 5 09:37:30 UTC 2025 I: Starting 1st build on remote node ionos1-amd64.debian.net. Wed Nov 5 09:37:30 UTC 2025 I: Preparing to do remote build '1' on ionos1-amd64.debian.net. Wed Nov 5 09:39:41 UTC 2025 I: Deleting $TMPDIR on ionos1-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Tue Nov 4 21:37:31 -12 2025 I: pbuilder-time-stamp: 1762335451 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [bppsuite_2.4.1-8.dsc] I: copying [./bppsuite_2.4.1.orig.tar.gz] I: copying [./bppsuite_2.4.1-8.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./bppsuite_2.4.1-8.dsc: no acceptable signature found 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_2.4.1-8.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying spelling dpkg-source: info: applying hardening dpkg-source: info: applying fixed-compilation-for-newest-MacOS.patch I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1903372/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=40 ' DISTRIBUTION='forky' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='2f168d55915d4417a43b2d7f147365d0' 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='1903372' 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.gvriFh3i/pbuilderrc_yIZl --distribution forky --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.gvriFh3i/b1 --logfile b1/build.log bppsuite_2.4.1-8.dsc' SUDO_GID='110' SUDO_HOME='/var/lib/jenkins' SUDO_UID='105' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://46.16.76.132:3128' I: uname -a Linux ionos1-amd64 6.12.48+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.48-1 (2025-09-20) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/1903372/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 ... 19862 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} libidn2-0{a} libintl-perl{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} libngtcp2-16{a} libngtcp2-crypto-ossl0{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} libxml2-16{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 libintl-xs-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, 86 newly installed, 0 to remove and 0 not upgraded. Need to get 45.2 MB of archives. After unpacking 215 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian forky/main amd64 libexpat1 amd64 2.7.3-1 [112 kB] Get: 2 http://deb.debian.org/debian forky/main amd64 libproc2-0 amd64 2:4.0.4-9 [65.6 kB] Get: 3 http://deb.debian.org/debian forky/main amd64 procps amd64 2:4.0.4-9 [882 kB] Get: 4 http://deb.debian.org/debian forky/main amd64 sensible-utils all 0.0.26 [27.0 kB] Get: 5 http://deb.debian.org/debian forky/main amd64 libmagic-mgc amd64 1:5.46-5 [338 kB] Get: 6 http://deb.debian.org/debian forky/main amd64 libmagic1t64 amd64 1:5.46-5 [109 kB] Get: 7 http://deb.debian.org/debian forky/main amd64 file amd64 1:5.46-5 [43.6 kB] Get: 8 http://deb.debian.org/debian forky/main amd64 gettext-base amd64 0.23.1-2+b1 [244 kB] Get: 9 http://deb.debian.org/debian forky/main amd64 libuchardet0 amd64 0.0.8-2 [68.5 kB] Get: 10 http://deb.debian.org/debian forky/main amd64 groff-base amd64 1.23.0-9 [1187 kB] Get: 11 http://deb.debian.org/debian forky/main amd64 bsdextrautils amd64 2.41.2-4 [98.5 kB] Get: 12 http://deb.debian.org/debian forky/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 13 http://deb.debian.org/debian forky/main amd64 man-db amd64 2.13.1-1 [1469 kB] Get: 14 http://deb.debian.org/debian forky/main amd64 libtext-charwidth-perl amd64 0.04-11+b4 [9476 B] Get: 15 http://deb.debian.org/debian forky/main amd64 libtext-wrapi18n-perl all 0.06-10 [8808 B] Get: 16 http://deb.debian.org/debian forky/main amd64 ucf all 3.0052 [43.3 kB] Get: 17 http://deb.debian.org/debian forky/main amd64 m4 amd64 1.4.20-2 [325 kB] Get: 18 http://deb.debian.org/debian forky/main amd64 autoconf all 2.72-3.1 [494 kB] Get: 19 http://deb.debian.org/debian forky/main amd64 autotools-dev all 20240727.1 [60.2 kB] Get: 20 http://deb.debian.org/debian forky/main amd64 automake all 1:1.18.1-2 [877 kB] Get: 21 http://deb.debian.org/debian forky/main amd64 autopoint all 0.23.1-2 [770 kB] Get: 22 http://deb.debian.org/debian forky/main amd64 cmake-data all 4.1.1+really3.31.6-2 [2268 kB] Get: 23 http://deb.debian.org/debian forky/main amd64 libxml2-16 amd64 2.14.6+dfsg-0.1 [651 kB] Get: 24 http://deb.debian.org/debian forky/main amd64 libarchive13t64 amd64 3.7.4-4+b1 [349 kB] Get: 25 http://deb.debian.org/debian forky/main amd64 libnghttp3-9 amd64 1.12.0-1 [68.4 kB] Get: 26 http://deb.debian.org/debian forky/main amd64 libngtcp2-16 amd64 1.16.0-1 [136 kB] Get: 27 http://deb.debian.org/debian forky/main amd64 libbrotli1 amd64 1.1.0-2+b7 [307 kB] Get: 28 http://deb.debian.org/debian forky/main amd64 libkrb5support0 amd64 1.21.3-5 [33.0 kB] Get: 29 http://deb.debian.org/debian forky/main amd64 libcom-err2 amd64 1.47.2-3+b3 [25.0 kB] Get: 30 http://deb.debian.org/debian forky/main amd64 libk5crypto3 amd64 1.21.3-5 [81.5 kB] Get: 31 http://deb.debian.org/debian forky/main amd64 libkeyutils1 amd64 1.6.3-6 [9456 B] Get: 32 http://deb.debian.org/debian forky/main amd64 libkrb5-3 amd64 1.21.3-5 [326 kB] Get: 33 http://deb.debian.org/debian forky/main amd64 libgssapi-krb5-2 amd64 1.21.3-5 [138 kB] Get: 34 http://deb.debian.org/debian forky/main amd64 libunistring5 amd64 1.3-2 [477 kB] Get: 35 http://deb.debian.org/debian forky/main amd64 libidn2-0 amd64 2.3.8-4 [110 kB] Get: 36 http://deb.debian.org/debian forky/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-10 [19.8 kB] Get: 37 http://deb.debian.org/debian forky/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-10 [57.8 kB] Get: 38 http://deb.debian.org/debian forky/main amd64 libldap2 amd64 2.6.10+dfsg-1 [194 kB] Get: 39 http://deb.debian.org/debian forky/main amd64 libnghttp2-14 amd64 1.64.0-1.1+b1 [76.2 kB] Get: 40 http://deb.debian.org/debian forky/main amd64 libngtcp2-crypto-ossl0 amd64 1.16.0-1 [27.5 kB] Get: 41 http://deb.debian.org/debian forky/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 42 http://deb.debian.org/debian forky/main amd64 libffi8 amd64 3.5.2-2 [25.5 kB] Get: 43 http://deb.debian.org/debian forky/main amd64 libp11-kit0 amd64 0.25.9-2 [443 kB] Get: 44 http://deb.debian.org/debian forky/main amd64 libtasn1-6 amd64 4.20.0-2 [49.9 kB] Get: 45 http://deb.debian.org/debian forky/main amd64 libgnutls30t64 amd64 3.8.10-3 [1493 kB] Get: 46 http://deb.debian.org/debian forky/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-3 [58.3 kB] Get: 47 http://deb.debian.org/debian forky/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 48 http://deb.debian.org/debian forky/main amd64 libcurl4t64 amd64 8.17.0~rc3-1 [409 kB] Get: 49 http://deb.debian.org/debian forky/main amd64 libjsoncpp26 amd64 1.9.6-4 [89.4 kB] Get: 50 http://deb.debian.org/debian forky/main amd64 librhash1 amd64 1.4.6-1 [137 kB] Get: 51 http://deb.debian.org/debian forky/main amd64 libuv1t64 amd64 1.51.0-2 [155 kB] Get: 52 http://deb.debian.org/debian forky/main amd64 cmake amd64 4.1.1+really3.31.6-2 [12.2 MB] Get: 53 http://deb.debian.org/debian forky/main amd64 libdebhelper-perl all 13.28 [92.4 kB] Get: 54 http://deb.debian.org/debian forky/main amd64 libtool all 2.5.4-7 [540 kB] Get: 55 http://deb.debian.org/debian forky/main amd64 dh-autoreconf all 21 [12.2 kB] Get: 56 http://deb.debian.org/debian forky/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 57 http://deb.debian.org/debian forky/main amd64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get: 58 http://deb.debian.org/debian forky/main amd64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get: 59 http://deb.debian.org/debian forky/main amd64 libelf1t64 amd64 0.194-1 [185 kB] Get: 60 http://deb.debian.org/debian forky/main amd64 dwz amd64 0.16-2 [108 kB] Get: 61 http://deb.debian.org/debian forky/main amd64 gettext amd64 0.23.1-2+b1 [1680 kB] Get: 62 http://deb.debian.org/debian forky/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 63 http://deb.debian.org/debian forky/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 64 http://deb.debian.org/debian forky/main amd64 debhelper all 13.28 [941 kB] Get: 65 http://deb.debian.org/debian forky/main amd64 libbpp-core4t64 amd64 2.4.1-14 [623 kB] Get: 66 http://deb.debian.org/debian forky/main amd64 libbpp-core-dev amd64 2.4.1-14 [964 kB] Get: 67 http://deb.debian.org/debian forky/main amd64 libbpp-seq12t64 amd64 2.4.1-14 [510 kB] Get: 68 http://deb.debian.org/debian forky/main amd64 libbpp-phyl12t64 amd64 2.4.1-12 [1713 kB] Get: 69 http://deb.debian.org/debian forky/main amd64 libbpp-seq-dev amd64 2.4.1-14 [740 kB] Get: 70 http://deb.debian.org/debian forky/main amd64 libbpp-phyl-dev amd64 2.4.1-12 [3029 kB] Get: 71 http://deb.debian.org/debian forky/main amd64 libbpp-popgen8t64 amd64 2.4.1-12 [245 kB] Get: 72 http://deb.debian.org/debian forky/main amd64 libbpp-popgen-dev amd64 2.4.1-12 [312 kB] Get: 73 http://deb.debian.org/debian forky/main amd64 libpkgconf3 amd64 1.8.1-4 [36.4 kB] Get: 74 http://deb.debian.org/debian forky/main amd64 pkgconf-bin amd64 1.8.1-4 [30.2 kB] Get: 75 http://deb.debian.org/debian forky/main amd64 pkgconf amd64 1.8.1-4 [26.2 kB] Get: 76 http://deb.debian.org/debian forky/main amd64 pkg-config amd64 1.8.1-4 [14.0 kB] Get: 77 http://deb.debian.org/debian forky/main amd64 libeigen3-dev all 3.4.0-5 [1034 kB] Get: 78 http://deb.debian.org/debian forky/main amd64 libintl-perl all 1.35-1 [690 kB] Get: 79 http://deb.debian.org/debian forky/main amd64 libtext-unidecode-perl all 1.30-3 [101 kB] Get: 80 http://deb.debian.org/debian forky/main amd64 libxml-namespacesupport-perl all 1.12-2 [15.1 kB] Get: 81 http://deb.debian.org/debian forky/main amd64 libxml-sax-base-perl all 1.09-3 [20.6 kB] Get: 82 http://deb.debian.org/debian forky/main amd64 libxml-sax-perl all 1.02+dfsg-4 [53.4 kB] Get: 83 http://deb.debian.org/debian forky/main amd64 libxml-libxml-perl amd64 2.0207+dfsg+really+2.0134-6 [313 kB] Get: 84 http://deb.debian.org/debian forky/main amd64 tex-common all 6.19 [29.4 kB] Get: 85 http://deb.debian.org/debian forky/main amd64 texinfo-lib amd64 7.2-5 [812 kB] Get: 86 http://deb.debian.org/debian forky/main amd64 texinfo all 7.2-5 [1973 kB] Fetched 45.2 MB in 2s (29.1 MB/s) Preconfiguring packages ... 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Setting up libtext-wrapi18n-perl (0.06-10) ... Setting up libelf1t64:amd64 (0.194-1) ... Setting up libkrb5support0:amd64 (1.21.3-5) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-10) ... Setting up libbpp-core-dev:amd64 (2.4.1-14) ... Setting up libxml-sax-base-perl (1.09-3) ... Setting up autotools-dev (20240727.1) ... Setting up libpkgconf3:amd64 (1.8.1-4) ... Setting up libjsoncpp26:amd64 (1.9.6-4) ... Setting up libproc2-0:amd64 (2:4.0.4-9) ... Setting up libunistring5:amd64 (1.3-2) ... Setting up autopoint (0.23.1-2) ... Setting up pkgconf-bin (1.8.1-4) ... Setting up libk5crypto3:amd64 (1.21.3-5) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-10) ... Setting up autoconf (2.72-3.1) ... Setting up libnghttp3-9:amd64 (1.12.0-1) ... Setting up libffi8:amd64 (3.5.2-2) ... Setting up dwz (0.16-2) ... Setting up sensible-utils (0.0.26) ... Setting up libuchardet0:amd64 (0.0.8-2) ... Setting up procps (2:4.0.4-9) ... Setting up libintl-perl (1.35-1) ... Setting up libtasn1-6:amd64 (4.20.0-2) ... Setting up libngtcp2-16:amd64 (1.16.0-1) ... Setting up cmake-data (4.1.1+really3.31.6-2) ... Setting up librhash1:amd64 (1.4.6-1) ... Setting up libkrb5-3:amd64 (1.21.3-5) ... Setting up libssh2-1t64:amd64 (1.11.1-1) ... Setting up libtext-unidecode-perl (1.30-3) ... Setting up libarchive13t64:amd64 (3.7.4-4+b1) ... Setting up libldap2:amd64 (2.6.10+dfsg-1) ... Setting up libbpp-seq12t64:amd64 (2.4.1-14) ... Setting up automake (1:1.18.1-2) ... update-alternatives: using /usr/bin/automake-1.18 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.15.0-1) ... Setting up libbpp-seq-dev:amd64 (2.4.1-14) ... Setting up gettext (0.23.1-2+b1) ... Setting up libtool (2.5.4-7) ... Setting up libbpp-phyl12t64:amd64 (2.4.1-12) ... Setting up libidn2-0:amd64 (2.3.8-4) ... Setting up libbpp-popgen8t64:amd64 (2.4.1-12) ... Setting up pkgconf:amd64 (1.8.1-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (21) ... Setting up libbpp-phyl-dev:amd64 (2.4.1-12) ... Setting up libp11-kit0:amd64 (0.25.9-2) ... Setting up libeigen3-dev (3.4.0-5) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-5) ... Setting up pkg-config:amd64 (1.8.1-4) ... Setting up ucf (3.0052) ... Setting up libngtcp2-crypto-ossl0:amd64 (1.16.0-1) ... Setting up dh-strip-nondeterminism (1.15.0-1) ... Setting up groff-base (1.23.0-9) ... Setting up libgnutls30t64:amd64 (3.8.10-3) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libbpp-popgen-dev:amd64 (2.4.1-12) ... Setting up libpsl5t64:amd64 (0.21.2-1.1+b1) ... Setting up man-db (2.13.1-1) ... 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 (6.19) ... update-language: texlive-base not installed and configured, doing nothing! Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-3) ... Setting up libxml-libxml-perl (2.0207+dfsg+really+2.0134-6) ... 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 (8.17.0~rc3-1) ... Setting up debhelper (13.28) ... Setting up texinfo (7.2-5) ... Setting up cmake (4.1.1+really3.31.6-2) ... Processing triggers for libc-bin (2.41-12) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps Reading package lists... Building dependency tree... Reading state information... fakeroot is already the newest version (1.37.1.2-1). Solving dependencies... 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. 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_2.4.1-8_source.changes dpkg-buildpackage: info: source package bppsuite dpkg-buildpackage: info: source version 2.4.1-8 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Santiago Vila 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 15.2.0 -- 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 (1.7s) -- 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 -j40 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 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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 /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/bppSuite /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/bppSuite/CMakeFiles/bppdist.dir/DependInfo.cmake "--color=" 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 /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/bppSuite 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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 /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/bppSuite /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/bppSuite/CMakeFiles/bppconsense.dir/DependInfo.cmake "--color=" 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 /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/bppSuite 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/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 /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/bppSuite /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/bppSuite/CMakeFiles/bppreroot.dir/DependInfo.cmake "--color=" make -f bppSuite/CMakeFiles/bpppopstats.dir/build.make bppSuite/CMakeFiles/bpppopstats.dir/depend make -f doc/CMakeFiles/info.dir/build.make doc/CMakeFiles/info.dir/depend make -f man/CMakeFiles/man.dir/build.make man/CMakeFiles/man.dir/depend 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/man 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bppSuite/CMakeFiles/bppseqman.dir/bppSeqMan.cpp.o [ 18%] Building CXX object bppSuite/CMakeFiles/bppmixedlikelihoods.dir/bppMixedLikelihoods.cpp.o [ 21%] Building CXX object bppSuite/CMakeFiles/bppancestor.dir/bppAncestor.cpp.o 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/bppconsense.dir/bppConsense.cpp.o -MF CMakeFiles/bppconsense.dir/bppConsense.cpp.o.d -o CMakeFiles/bppconsense.dir/bppConsense.cpp.o -c /build/reproducible-path/bppsuite-2.4.1/bppSuite/bppConsense.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 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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 [ 23%] Building CXX object bppSuite/CMakeFiles/bpptreedraw.dir/bppTreeDraw.cpp.o [ 26%] Compressing manpage bppancestor.1 [ 31%] Building CXX object bppSuite/CMakeFiles/bppalnscore.dir/bppAlnScore.cpp.o [ 36%] Building CXX object bppSuite/CMakeFiles/bppreroot.dir/bppReRoot.cpp.o [ 39%] Building CXX object bppSuite/CMakeFiles/bpppopstats.dir/bppPopStats.cpp.o [ 42%] Compressing manpage bppdist.1 [ 57%] Compressing manpage bppseqgen.1 [ 60%] Compressing manpage bppreroot.1 [ 65%] Compressing manpage bppconsense.1 [ 65%] Compressing manpage bppml.1 [ 65%] Compressing manpage bppmixedlikelihoods.1 [ 65%] Compressing manpage bppseqman.1 [ 65%] Compressing manpage bpppopstats.1 [ 65%] Compressing manpage bppalnscore.1 [ 65%] Compressing manpage bpptreedraw.1 [ 65%] Generating info page [ 65%] Compressing manpage bpppars.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 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 cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/bppSuite && /usr/bin/c++ -g -O2 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/build/reproducible-path/bppsuite-2.4.1/bppSuite/bppTreeDraw.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/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/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/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 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 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/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 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 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 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 -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/bppalnscore.dir/link.d CMakeFiles/bppalnscore.dir/bppAlnScore.cpp.o -o bppalnscore /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' [ 71%] Built target bppalnscore [ 73%] Linking CXX executable bppseqman cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/bppSuite && /usr/bin/cmake -E cmake_link_script CMakeFiles/bppseqman.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 -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' [ 73%] Built target bppseqman [ 76%] Linking CXX executable bppconsense cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/bppSuite && /usr/bin/cmake -E cmake_link_script CMakeFiles/bppconsense.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 -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 [ 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 /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 -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' [ 78%] Built target bpptreedraw [ 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 -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 -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 && /usr/bin/cmake -E cmake_link_script CMakeFiles/bppmixedlikelihoods.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 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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' [ 89%] Built target bppancestor [ 92%] 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 [ 94%] Linking CXX executable bppdist cd /build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu/bppSuite && /usr/bin/cmake -E cmake_link_script CMakeFiles/bppdist.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 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'/build/reproducible-path/bppsuite-2.4.1/obj-x86_64-linux-gnu' [ 94%] Built target bppseqgen [ 94%] Built target bppdist [ 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 -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 -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 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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' in '../bppsuite_2.4.1-8_amd64.deb'. dpkg-deb: building package 'bppsuite-dbgsym' in '../bppsuite-dbgsym_2.4.1-8_amd64.deb'. dpkg-deb: building package 'bppsuite-examples' in '../bppsuite-examples_2.4.1-8_all.deb'. dpkg-genbuildinfo --build=binary -O../bppsuite_2.4.1-8_amd64.buildinfo dpkg-genchanges --build=binary -O../bppsuite_2.4.1-8_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/1903372 and its subdirectories I: Current time: Tue Nov 4 21:39:40 -12 2025 I: pbuilder-time-stamp: 1762335580 Wed Nov 5 09:39:41 UTC 2025 I: 1st build successful. Starting 2nd build on remote node ionos15-amd64.debian.net. Wed Nov 5 09:39:41 UTC 2025 I: Preparing to do remote build '2' on ionos15-amd64.debian.net. Wed Nov 5 09:41:00 UTC 2025 I: Deleting $TMPDIR on ionos15-amd64.debian.net. Wed Nov 5 09:41:00 UTC 2025 I: bppsuite_2.4.1-8_amd64.changes: Format: 1.8 Date: Tue, 14 Oct 2025 02:20:00 +0200 Source: bppsuite Binary: bppsuite bppsuite-dbgsym bppsuite-examples Architecture: amd64 all Version: 2.4.1-8 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Santiago Vila Description: bppsuite - Bio++ program suite bppsuite-examples - Examples for Bio++ program suite Closes: 1112733 Changes: bppsuite (2.4.1-8) unstable; urgency=medium . * Team upload. . [ Adrian Bunk ] * Backport upstream fix for FTBFS with CMake 4. Closes: #1112733. . [ Santiago Vila ] * d/control: Drop "Rules-Requires-Root: no" (default). * d/control: Update standards-version. * d/salsa-ci.yml: Use the simplified version. Checksums-Sha1: 65592c0893c92463391d6e5b41add731bf443640 6556428 bppsuite-dbgsym_2.4.1-8_amd64.deb 36a396f5e7a6db34d38af22197f017c3ad94fe66 227444 bppsuite-examples_2.4.1-8_all.deb 27498b870280f461a7818bcd7890105ab84f14fa 6913 bppsuite_2.4.1-8_amd64.buildinfo 2ebf8231c6a8c4e15cbaa5d53a4ec1b999c5a09a 396220 bppsuite_2.4.1-8_amd64.deb Checksums-Sha256: fcde415d45b25a479169bf36ef380ac93b57e405a74c581c4aa4ead038f13b43 6556428 bppsuite-dbgsym_2.4.1-8_amd64.deb f04fef1f826b2396a5c4fcdaa6fbc46e3790c533d6ab4c7632cf2a6115a714d7 227444 bppsuite-examples_2.4.1-8_all.deb 5c3c8cc8056647b89d757d0fb42a66cbd2d51f6a2fda636981d856ae25653d76 6913 bppsuite_2.4.1-8_amd64.buildinfo 37a2832f131fe4c250ac05a03b59f3eacc556578bd00c4a74af8bdf7e7181046 396220 bppsuite_2.4.1-8_amd64.deb Files: 5fc6051fbc085798bc08da9433215f97 6556428 debug optional bppsuite-dbgsym_2.4.1-8_amd64.deb 59b6a620ea000b1aaa1c24af46ebbb3c 227444 science optional bppsuite-examples_2.4.1-8_all.deb 04ab460f5cfafa5cb4c8c3ef0462b33d 6913 science optional bppsuite_2.4.1-8_amd64.buildinfo e80b83fbfd2181001718df584d16596c 396220 science optional bppsuite_2.4.1-8_amd64.deb Wed Nov 5 09:41:01 UTC 2025 I: diffoscope 307 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_29-59841.service; invocation ID: b2382bb6ae4143ba8a86addf081112df # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.gvriFh3i/bppsuite_2.4.1-8.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.gvriFh3i/bppsuite_2.4.1-8.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.gvriFh3i/bppsuite_2.4.1-8.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.gvriFh3i/b1/bppsuite_2.4.1-8_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.gvriFh3i/b2/bppsuite_2.4.1-8_amd64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call diffoscope.comparators.binary.FilesystemFile ## main (total time: 0.003s) 0.003s 2 calls outputs 0.000s 1 call cleanup Finished with result: success Main processes terminated with: code=exited, status=0/SUCCESS Service runtime: 222ms CPU time consumed: 171ms Memory peak: 18.1M (swap: 0B) Wed Nov 5 09:41:02 UTC 2025 I: diffoscope 307 found no differences in the changes files, and a .buildinfo file also exists. Wed Nov 5 09:41:02 UTC 2025 I: bppsuite from forky built successfully and reproducibly on amd64. Wed Nov 5 09:41:02 UTC 2025 I: Removing signed bppsuite_2.4.1-8_amd64.buildinfo.asc files: removed './b1/bppsuite_2.4.1-8_amd64.buildinfo.asc' removed './b2/bppsuite_2.4.1-8_amd64.buildinfo.asc'