Sun Dec 8 02:47:01 UTC 2024 I: starting to build libbpp-phyl-omics/trixie/amd64 on jenkins on '2024-12-08 02:46' Sun Dec 8 02:47:01 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_28/41481/console.log Sun Dec 8 02:47:01 UTC 2024 I: Downloading source for trixie/libbpp-phyl-omics=2.4.1-7 --2024-12-08 02:47:01-- http://deb.debian.org/debian/pool/main/libb/libbpp-phyl-omics/libbpp-phyl-omics_2.4.1-7.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2273 (2.2K) [text/prs.lines.tag] Saving to: ‘libbpp-phyl-omics_2.4.1-7.dsc’ 0K .. 100% 344M=0s 2024-12-08 02:47:01 (344 MB/s) - ‘libbpp-phyl-omics_2.4.1-7.dsc’ saved [2273/2273] Sun Dec 8 02:47:01 UTC 2024 I: libbpp-phyl-omics_2.4.1-7.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: libbpp-phyl-omics Binary: libbpp-phyl-omics-dev, libbpp-phyl-omics3t64 Architecture: any Version: 2.4.1-7 Maintainer: Debian Med Packaging Team Uploaders: Julien Dutheil , Andreas Tille Homepage: http://biopp.univ-montp2.fr/wiki/index.php/Main_Page Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/med-team/libbpp-phyl-omics Vcs-Git: https://salsa.debian.org/med-team/libbpp-phyl-omics.git Build-Depends: dpkg-dev (>= 1.22.5), debhelper-compat (= 13), cmake, d-shlibs (>= 0.106~), libbpp-phyl-dev, libbpp-seq-omics-dev Package-List: libbpp-phyl-omics-dev deb libdevel optional arch=any libbpp-phyl-omics3t64 deb libs optional arch=any Checksums-Sha1: b3132c35963eec7890514c1766b6c13f5c661a31 48482 libbpp-phyl-omics_2.4.1.orig.tar.gz f07d9e671ce92f33785fb09e6e422cb040048cb4 10632 libbpp-phyl-omics_2.4.1-7.debian.tar.xz Checksums-Sha256: fb0908422e59c71065db874e68d5c71acddf66d8a51776f7e04a5f8d5f0f6577 48482 libbpp-phyl-omics_2.4.1.orig.tar.gz 4d614b594eaf300295bc8917f4ef099983f308d8cf0cd94e1c7c5bf80e9cafcd 10632 libbpp-phyl-omics_2.4.1-7.debian.tar.xz Files: 7c1c1d06e0c0ff61ddecc7fcc4064f51 48482 libbpp-phyl-omics_2.4.1.orig.tar.gz 729df38076498102b04f2079f46081db 10632 libbpp-phyl-omics_2.4.1-7.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmaIG78RHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtEU0w/+L4emwpTj/eFImhXcCnJe0o/7cILtBJos EVyqrHF68gE0/AA65XyiSoN0jL3yFaHFWpYrjRXyODdqHtibA5FVM3N/dXziKIE2 AmHfJLKGRrysJWxoCRvS8hEI2P6NeuUonM+iJUDcy7oT8sdZgDi8HJd/W4iBUWnF YshHsHgt6oFamW6O5texvoKAZL8s71WRQw2PUXL7Rd/Rf76s+F0iqlJ9WY+wnHpP Mk+Vi6WsG1NYsNHRVUIJe+zn7DBxl4Xx0IYrIHl7OHet7SmdawkHc6V3TMcoATkA 3coeJ/CS5jTzW0elsCwcRBrdup7oow43LhGImoblIjQbjRpZ+DnqbJLJoath1AWr fkiNk48zLU0HntrDruuxNUPgja62z6VnLh+T404QFTmNgKMq8e50czDzWQhUjFfi yzOv6HH3XvliGZJ4l+ZnKv5PzKErHzzN1ARqtM12suzIHuSYPPlJwaO2q6SfsiuX V4zWw1NZXR1G1oQe6TZN7brWRe2FpqgfDI70VnzLnb90yWDxGAkyMtcNp+t6alUo 5XggAYrnJVRPBZLkGC6JwoRudjILb+wj6IaC4Bh06XIZunaZGCqZwlmtZ8v/qYDq eMilB0xb+rHNeciqogsCsjtxd/loZMGBubXTYzty/mEjehYHSWy2f7O/lutA42k9 R3I2oP67tmE= =gHC2 -----END PGP SIGNATURE----- Sun Dec 8 02:47:01 UTC 2024 I: Checking whether the package is not for us Sun Dec 8 02:47:01 UTC 2024 I: Starting 1st build on remote node ionos15-amd64.debian.net. Sun Dec 8 02:47:01 UTC 2024 I: Preparing to do remote build '1' on ionos15-amd64.debian.net. Sun Dec 8 02:47:58 UTC 2024 I: Deleting $TMPDIR on ionos15-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Fri Jan 9 21:10:02 -12 2026 I: pbuilder-time-stamp: 1768036202 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 [libbpp-phyl-omics_2.4.1-7.dsc] I: copying [./libbpp-phyl-omics_2.4.1.orig.tar.gz] I: copying [./libbpp-phyl-omics_2.4.1-7.debian.tar.xz] I: Extracting source gpgv: Signature made Fri Jul 5 16:13:51 2024 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./libbpp-phyl-omics_2.4.1-7.dsc: no acceptable signature found dpkg-source: info: extracting libbpp-phyl-omics in libbpp-phyl-omics-2.4.1 dpkg-source: info: unpacking libbpp-phyl-omics_2.4.1.orig.tar.gz dpkg-source: info: unpacking libbpp-phyl-omics_2.4.1-7.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying unforce-cxxflags.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/1860385/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='5bb2d0bc56d2482785cb85f329d28be0' 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='1860385' 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.ccZFoYcK/pbuilderrc_P4W0 --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.ccZFoYcK/b1 --logfile b1/build.log libbpp-phyl-omics_2.4.1-7.dsc' SUDO_GID='111' SUDO_UID='106' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://213.165.73.152:3128' I: uname -a Linux ionos15-amd64 6.11.5+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.11.5-1~bpo12+1 (2024-11-11) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin I: user script /srv/workspace/pbuilder/1860385/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: dpkg-dev (>= 1.22.5), debhelper-compat (= 13), cmake, d-shlibs (>= 0.106~), libbpp-phyl-dev, libbpp-seq-omics-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 ... 19970 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 d-shlibs (>= 0.106~); however: Package d-shlibs 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-seq-omics-dev; however: Package libbpp-seq-omics-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} d-shlibs{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13t64{a} libbpp-core-dev{a} libbpp-core4t64{a} libbpp-phyl-dev{a} libbpp-phyl12t64{a} libbpp-seq-dev{a} libbpp-seq-omics-dev{a} libbpp-seq-omics3t64{a} libbpp-seq12t64{a} libbrotli1{a} libcom-err2{a} libcurl4t64{a} libdebhelper-perl{a} libelf1t64{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libgssapi-krb5-2{a} libicu72{a} libjsoncpp26{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap-2.5-0{a} libmagic-mgc{a} libmagic1t64{a} libnghttp2-14{a} libpipeline1{a} libproc2-0{a} libpsl5t64{a} librhash1{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1t64{a} libtool{a} libuchardet0{a} libuv1t64{a} libxml2{a} m4{a} man-db{a} po-debconf{a} procps{a} sensible-utils{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 linux-sysctl-defaults lynx psmisc publicsuffix wget 0 packages upgraded, 62 newly installed, 0 to remove and 0 not upgraded. Need to get 45.3 MB of archives. After unpacking 213 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main amd64 libproc2-0 amd64 2:4.0.4-6 [64.8 kB] Get: 2 http://deb.debian.org/debian trixie/main amd64 procps amd64 2:4.0.4-6 [879 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 0.22.5-2 [200 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 1.23.0-5 [1181 kB] Get: 10 http://deb.debian.org/debian trixie/main amd64 bsdextrautils amd64 2.40.2-11 [91.5 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 m4 amd64 1.4.19-4 [287 kB] Get: 14 http://deb.debian.org/debian trixie/main amd64 autoconf all 2.72-3 [493 kB] Get: 15 http://deb.debian.org/debian trixie/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 16 http://deb.debian.org/debian trixie/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 17 http://deb.debian.org/debian trixie/main amd64 autopoint all 0.22.5-2 [723 kB] Get: 18 http://deb.debian.org/debian trixie/main amd64 cmake-data all 3.30.5-1 [2223 kB] Get: 19 http://deb.debian.org/debian trixie/main amd64 libicu72 amd64 72.1-5+b1 [9423 kB] Get: 20 http://deb.debian.org/debian trixie/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [699 kB] Get: 21 http://deb.debian.org/debian trixie/main amd64 libarchive13t64 amd64 3.7.4-1.1 [349 kB] Get: 22 http://deb.debian.org/debian trixie/main amd64 libbrotli1 amd64 1.1.0-2+b6 [302 kB] Get: 23 http://deb.debian.org/debian trixie/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get: 24 http://deb.debian.org/debian trixie/main amd64 libcom-err2 amd64 1.47.2~rc1-2 [23.8 kB] Get: 25 http://deb.debian.org/debian trixie/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get: 26 http://deb.debian.org/debian trixie/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B] Get: 27 http://deb.debian.org/debian trixie/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get: 28 http://deb.debian.org/debian trixie/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get: 29 http://deb.debian.org/debian trixie/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-8 [19.6 kB] Get: 30 http://deb.debian.org/debian trixie/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-8 [57.3 kB] Get: 31 http://deb.debian.org/debian trixie/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-3+b1 [188 kB] Get: 32 http://deb.debian.org/debian trixie/main amd64 libnghttp2-14 amd64 1.64.0-1 [75.5 kB] Get: 33 http://deb.debian.org/debian trixie/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 34 http://deb.debian.org/debian trixie/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB] Get: 35 http://deb.debian.org/debian trixie/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 36 http://deb.debian.org/debian trixie/main amd64 libcurl4t64 amd64 8.11.0-1 [351 kB] Get: 37 http://deb.debian.org/debian trixie/main amd64 libexpat1 amd64 2.6.4-1 [106 kB] Get: 38 http://deb.debian.org/debian trixie/main amd64 libjsoncpp26 amd64 1.9.6-3 [81.7 kB] Get: 39 http://deb.debian.org/debian trixie/main amd64 librhash1 amd64 1.4.5-1 [132 kB] Get: 40 http://deb.debian.org/debian trixie/main amd64 libuv1t64 amd64 1.48.0-7 [148 kB] Get: 41 http://deb.debian.org/debian trixie/main amd64 cmake amd64 3.30.5-1 [11.4 MB] Get: 42 http://deb.debian.org/debian trixie/main amd64 d-shlibs all 0.108 [11.0 kB] Get: 43 http://deb.debian.org/debian trixie/main amd64 libdebhelper-perl all 13.20 [89.7 kB] Get: 44 http://deb.debian.org/debian trixie/main amd64 libtool all 2.4.7-8 [517 kB] Get: 45 http://deb.debian.org/debian trixie/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 46 http://deb.debian.org/debian trixie/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 47 http://deb.debian.org/debian trixie/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 48 http://deb.debian.org/debian trixie/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 49 http://deb.debian.org/debian trixie/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 50 http://deb.debian.org/debian trixie/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 51 http://deb.debian.org/debian trixie/main amd64 gettext amd64 0.22.5-2 [1601 kB] Get: 52 http://deb.debian.org/debian trixie/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 53 http://deb.debian.org/debian trixie/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 54 http://deb.debian.org/debian trixie/main amd64 debhelper all 13.20 [915 kB] Get: 55 http://deb.debian.org/debian trixie/main amd64 libbpp-core4t64 amd64 2.4.1-13+b1 [629 kB] Get: 56 http://deb.debian.org/debian trixie/main amd64 libbpp-core-dev amd64 2.4.1-13+b1 [967 kB] Get: 57 http://deb.debian.org/debian trixie/main amd64 libbpp-seq12t64 amd64 2.4.1-13 [510 kB] Get: 58 http://deb.debian.org/debian trixie/main amd64 libbpp-phyl12t64 amd64 2.4.1-11+b1 [1716 kB] Get: 59 http://deb.debian.org/debian trixie/main amd64 libbpp-seq-dev amd64 2.4.1-13 [745 kB] Get: 60 http://deb.debian.org/debian trixie/main amd64 libbpp-phyl-dev amd64 2.4.1-11+b1 [3001 kB] Get: 61 http://deb.debian.org/debian trixie/main amd64 libbpp-seq-omics3t64 amd64 2.4.1-12 [230 kB] Get: 62 http://deb.debian.org/debian trixie/main amd64 libbpp-seq-omics-dev amd64 2.4.1-12 [378 kB] Fetched 45.3 MB in 1s (52.0 MB/s) debconf: delaying package configuration, since apt-utils is not installed 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 ... 19970 files and directories currently installed.) Preparing to unpack .../00-libproc2-0_2%3a4.0.4-6_amd64.deb ... Unpacking libproc2-0:amd64 (2:4.0.4-6) ... Selecting previously unselected package procps. Preparing to unpack .../01-procps_2%3a4.0.4-6_amd64.deb ... Unpacking procps (2:4.0.4-6) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../02-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../03-libmagic-mgc_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../04-libmagic1t64_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../05-file_1%3a5.45-3+b1_amd64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../06-gettext-base_0.22.5-2_amd64.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../07-libuchardet0_0.0.8-1+b2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../08-groff-base_1.23.0-5_amd64.deb ... Unpacking groff-base (1.23.0-5) ... 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Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/libbpp-phyl-omics-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 > ../libbpp-phyl-omics_2.4.1-7_source.changes dpkg-buildpackage: info: source package libbpp-phyl-omics dpkg-buildpackage: info: source version 2.4.1-7 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_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:8 (cmake_minimum_required): Compatibility with CMake < 3.5 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. -- 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 -- 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-seq-omics 3.0.0 found: -- static lib: /usr/lib/x86_64-linux-gnu/libbpp-seq-omics.a -- shared lib: /usr/lib/x86_64-linux-gnu/libbpp-seq-omics.so.3.0.0 -- 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 -- Could NOT find Doxygen (missing: DOXYGEN_EXECUTABLE) -- Configuring done (0.3s) -- 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/libbpp-phyl-omics-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/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/libbpp-phyl-omics-2.4.1 -B/build/reproducible-path/libbpp-phyl-omics-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/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu' make -f src/CMakeFiles/bpp-phyl-omics-static.dir/build.make src/CMakeFiles/bpp-phyl-omics-static.dir/depend make -f src/CMakeFiles/bpp-phyl-omics-shared.dir/build.make src/CMakeFiles/bpp-phyl-omics-shared.dir/depend make[3]: Entering directory '/build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu' cd /build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libbpp-phyl-omics-2.4.1 /build/reproducible-path/libbpp-phyl-omics-2.4.1/src /build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu /build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu/src /build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu/src/CMakeFiles/bpp-phyl-omics-static.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu' cd /build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libbpp-phyl-omics-2.4.1 /build/reproducible-path/libbpp-phyl-omics-2.4.1/src /build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu /build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu/src /build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu/src/CMakeFiles/bpp-phyl-omics-shared.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu' make -f src/CMakeFiles/bpp-phyl-omics-static.dir/build.make src/CMakeFiles/bpp-phyl-omics-static.dir/build make -f src/CMakeFiles/bpp-phyl-omics-shared.dir/build.make src/CMakeFiles/bpp-phyl-omics-shared.dir/build make[3]: Entering directory '/build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu' [ 30%] Building CXX object src/CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/DistanceBasedPhylogenyReconstructionMafIterator.cpp.o [ 30%] Building CXX object src/CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/CountDistanceEstimationMafIterator.cpp.o [ 30%] Building CXX object src/CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/MaximumLikelihoodDistanceEstimationMafIterator.cpp.o [ 30%] Building CXX object src/CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/CountDistanceEstimationMafIterator.cpp.o [ 30%] Building CXX object src/CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/CountClustersMafStatistics.cpp.o [ 30%] Building CXX object src/CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/CountClustersMafStatistics.cpp.o [ 35%] Building CXX object src/CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/MaximumLikelihoodModelFitMafStatistics.cpp.o [ 65%] Building CXX object src/CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/MaximumLikelihoodDistanceEstimationMafIterator.cpp.o [ 65%] Building CXX object src/CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/OutputTreeMafIterator.cpp.o [ 65%] Building CXX object src/CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/MaximumLikelihoodModelFitMafStatistics.cpp.o cd /build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-phyl-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-phyl-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat 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src/CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/FilterTreeMafIterator.cpp.o [ 80%] Building CXX object src/CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/OutputTreeMafIterator.cpp.o cd /build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-phyl-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-phyl-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/CountClustersMafStatistics.cpp.o -MF CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/CountClustersMafStatistics.cpp.o.d -o CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/CountClustersMafStatistics.cpp.o -c /build/reproducible-path/libbpp-phyl-omics-2.4.1/src/Bpp/Seq/Io/Maf/CountClustersMafStatistics.cpp cd 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src/CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/OutputDistanceMatrixMafIterator.cpp.o cd /build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_omics_shared_EXPORTS -I/build/reproducible-path/libbpp-phyl-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-phyl-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/DistanceBasedPhylogenyReconstructionMafIterator.cpp.o -MF CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/DistanceBasedPhylogenyReconstructionMafIterator.cpp.o.d -o CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/DistanceBasedPhylogenyReconstructionMafIterator.cpp.o -c /build/reproducible-path/libbpp-phyl-omics-2.4.1/src/Bpp/Seq/Io/Maf/DistanceBasedPhylogenyReconstructionMafIterator.cpp cd /build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-phyl-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-phyl-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/CountDistanceEstimationMafIterator.cpp.o -MF CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/CountDistanceEstimationMafIterator.cpp.o.d -o CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/CountDistanceEstimationMafIterator.cpp.o -c /build/reproducible-path/libbpp-phyl-omics-2.4.1/src/Bpp/Seq/Io/Maf/CountDistanceEstimationMafIterator.cpp cd /build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-phyl-omics-2.4.1/src -g -O2 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CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/MaximumLikelihoodDistanceEstimationMafIterator.cpp.o.d -o CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/MaximumLikelihoodDistanceEstimationMafIterator.cpp.o -c /build/reproducible-path/libbpp-phyl-omics-2.4.1/src/Bpp/Seq/Io/Maf/MaximumLikelihoodDistanceEstimationMafIterator.cpp cd /build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-phyl-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-phyl-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/DistanceBasedPhylogenyReconstructionMafIterator.cpp.o -MF CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/DistanceBasedPhylogenyReconstructionMafIterator.cpp.o.d -o CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/DistanceBasedPhylogenyReconstructionMafIterator.cpp.o -c /build/reproducible-path/libbpp-phyl-omics-2.4.1/src/Bpp/Seq/Io/Maf/DistanceBasedPhylogenyReconstructionMafIterator.cpp cd /build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-phyl-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-phyl-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/TreeManipulationMafIterators.cpp.o -MF CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/TreeManipulationMafIterators.cpp.o.d -o CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/TreeManipulationMafIterators.cpp.o -c /build/reproducible-path/libbpp-phyl-omics-2.4.1/src/Bpp/Seq/Io/Maf/TreeManipulationMafIterators.cpp cd /build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_omics_shared_EXPORTS -I/build/reproducible-path/libbpp-phyl-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-phyl-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/MaximumLikelihoodModelFitMafStatistics.cpp.o -MF CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/MaximumLikelihoodModelFitMafStatistics.cpp.o.d -o CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/MaximumLikelihoodModelFitMafStatistics.cpp.o -c /build/reproducible-path/libbpp-phyl-omics-2.4.1/src/Bpp/Seq/Io/Maf/MaximumLikelihoodModelFitMafStatistics.cpp cd /build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-phyl-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-phyl-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/FilterTreeMafIterator.cpp.o -MF CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/FilterTreeMafIterator.cpp.o.d -o CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/FilterTreeMafIterator.cpp.o -c /build/reproducible-path/libbpp-phyl-omics-2.4.1/src/Bpp/Seq/Io/Maf/FilterTreeMafIterator.cpp cd /build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/build/reproducible-path/libbpp-phyl-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-phyl-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/OutputDistanceMatrixMafIterator.cpp.o -MF CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/OutputDistanceMatrixMafIterator.cpp.o.d -o CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/OutputDistanceMatrixMafIterator.cpp.o -c /build/reproducible-path/libbpp-phyl-omics-2.4.1/src/Bpp/Seq/Io/Maf/OutputDistanceMatrixMafIterator.cpp cd /build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_omics_shared_EXPORTS -I/build/reproducible-path/libbpp-phyl-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-phyl-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/TreeManipulationMafIterators.cpp.o -MF CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/TreeManipulationMafIterators.cpp.o.d -o CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/TreeManipulationMafIterators.cpp.o -c /build/reproducible-path/libbpp-phyl-omics-2.4.1/src/Bpp/Seq/Io/Maf/TreeManipulationMafIterators.cpp cd /build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_omics_shared_EXPORTS -I/build/reproducible-path/libbpp-phyl-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-phyl-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/FilterTreeMafIterator.cpp.o -MF CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/FilterTreeMafIterator.cpp.o.d -o CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/FilterTreeMafIterator.cpp.o -c /build/reproducible-path/libbpp-phyl-omics-2.4.1/src/Bpp/Seq/Io/Maf/FilterTreeMafIterator.cpp cd /build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_omics_shared_EXPORTS -I/build/reproducible-path/libbpp-phyl-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-phyl-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/OutputTreeMafIterator.cpp.o -MF CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/OutputTreeMafIterator.cpp.o.d -o CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/OutputTreeMafIterator.cpp.o -c /build/reproducible-path/libbpp-phyl-omics-2.4.1/src/Bpp/Seq/Io/Maf/OutputTreeMafIterator.cpp cd /build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dbpp_phyl_omics_shared_EXPORTS -I/build/reproducible-path/libbpp-phyl-omics-2.4.1/src -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-phyl-omics-2.4.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++11 -Wall -Weffc++ -Wshadow -Wconversion -MD -MT src/CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/OutputDistanceMatrixMafIterator.cpp.o -MF CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/OutputDistanceMatrixMafIterator.cpp.o.d -o CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/OutputDistanceMatrixMafIterator.cpp.o -c /build/reproducible-path/libbpp-phyl-omics-2.4.1/src/Bpp/Seq/Io/Maf/OutputDistanceMatrixMafIterator.cpp [ 95%] Linking CXX static library libbpp-phyl-omics.a cd /build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/cmake -P CMakeFiles/bpp-phyl-omics-static.dir/cmake_clean_target.cmake cd /build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/bpp-phyl-omics-static.dir/link.txt --verbose=1 /usr/bin/ar qc libbpp-phyl-omics.a "CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/CountClustersMafStatistics.cpp.o" "CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/CountDistanceEstimationMafIterator.cpp.o" "CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/DistanceBasedPhylogenyReconstructionMafIterator.cpp.o" "CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/MaximumLikelihoodDistanceEstimationMafIterator.cpp.o" "CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/MaximumLikelihoodModelFitMafStatistics.cpp.o" "CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/TreeManipulationMafIterators.cpp.o" "CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/FilterTreeMafIterator.cpp.o" "CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/OutputTreeMafIterator.cpp.o" "CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/OutputDistanceMatrixMafIterator.cpp.o" [100%] Linking CXX shared library libbpp-phyl-omics.so cd /build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/bpp-phyl-omics-shared.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/libbpp-phyl-omics-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 -shared -Wl,-soname,libbpp-phyl-omics.so.3 -o libbpp-phyl-omics.so.3.0.0 "CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/CountClustersMafStatistics.cpp.o" "CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/CountDistanceEstimationMafIterator.cpp.o" "CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/DistanceBasedPhylogenyReconstructionMafIterator.cpp.o" "CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/MaximumLikelihoodDistanceEstimationMafIterator.cpp.o" "CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/MaximumLikelihoodModelFitMafStatistics.cpp.o" "CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/TreeManipulationMafIterators.cpp.o" "CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/FilterTreeMafIterator.cpp.o" "CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/OutputTreeMafIterator.cpp.o" "CMakeFiles/bpp-phyl-omics-shared.dir/Bpp/Seq/Io/Maf/OutputDistanceMatrixMafIterator.cpp.o" /usr/lib/x86_64-linux-gnu/libbpp-seq-omics.so.3.0.0 /usr/lib/x86_64-linux-gnu/libbpp-phyl.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-seq.so.12.0.0 /usr/lib/x86_64-linux-gnu/libbpp-core.so.4.1.0 /usr/bin/ranlib libbpp-phyl-omics.a make[3]: Leaving directory '/build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu' [100%] Built target bpp-phyl-omics-static cd /build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu/src && /usr/bin/cmake -E cmake_symlink_library libbpp-phyl-omics.so.3.0.0 libbpp-phyl-omics.so.3 libbpp-phyl-omics.so make[3]: Leaving directory '/build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu' [100%] Built target bpp-phyl-omics-shared make[2]: Leaving directory '/build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/libbpp-phyl-omics-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/libbpp-phyl-omics-2.4.1/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/libbpp-phyl-omics-2.4.1 -B/build/reproducible-path/libbpp-phyl-omics-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/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/reproducible-path/libbpp-phyl-omics-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/libbpp-phyl-omics-2.4.1/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/bpp-phyl-omics/bpp-phyl-omics-config.cmake -- Installing: /build/reproducible-path/libbpp-phyl-omics-2.4.1/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/bpp-phyl-omics/bpp-phyl-omics-config-version.cmake -- Installing: /build/reproducible-path/libbpp-phyl-omics-2.4.1/debian/tmp/usr/lib/x86_64-linux-gnu/libbpp-phyl-omics.a -- Installing: /build/reproducible-path/libbpp-phyl-omics-2.4.1/debian/tmp/usr/lib/x86_64-linux-gnu/libbpp-phyl-omics.so.3.0.0 -- Installing: /build/reproducible-path/libbpp-phyl-omics-2.4.1/debian/tmp/usr/lib/x86_64-linux-gnu/libbpp-phyl-omics.so.3 -- Installing: /build/reproducible-path/libbpp-phyl-omics-2.4.1/debian/tmp/usr/lib/x86_64-linux-gnu/libbpp-phyl-omics.so -- Installing: /build/reproducible-path/libbpp-phyl-omics-2.4.1/debian/tmp/usr/include/Bpp -- Installing: /build/reproducible-path/libbpp-phyl-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq -- Installing: /build/reproducible-path/libbpp-phyl-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io -- Installing: /build/reproducible-path/libbpp-phyl-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf -- Installing: /build/reproducible-path/libbpp-phyl-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/OutputTreeMafIterator.h -- Installing: /build/reproducible-path/libbpp-phyl-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/AbstractDistanceEstimationMafIterator.h -- Installing: /build/reproducible-path/libbpp-phyl-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/CountDistanceEstimationMafIterator.h -- Installing: /build/reproducible-path/libbpp-phyl-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/TreeManipulationMafIterators.h -- Installing: /build/reproducible-path/libbpp-phyl-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/OutputDistanceMatrixMafIterator.h -- Installing: /build/reproducible-path/libbpp-phyl-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/FilterTreeMafIterator.h -- Installing: /build/reproducible-path/libbpp-phyl-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/AbstractPhylogenyReconstructionMafIterator.h -- Installing: /build/reproducible-path/libbpp-phyl-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/CountClustersMafStatistics.h -- Installing: /build/reproducible-path/libbpp-phyl-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/DistanceBasedPhylogenyReconstructionMafIterator.h -- Installing: /build/reproducible-path/libbpp-phyl-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/MaximumLikelihoodModelFitMafStatistics.h -- Installing: /build/reproducible-path/libbpp-phyl-omics-2.4.1/debian/tmp/usr/include/Bpp/Seq/Io/Maf/MaximumLikelihoodDistanceEstimationMafIterator.h -- Installing: /build/reproducible-path/libbpp-phyl-omics-2.4.1/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/bpp-phyl-omics/bpp-phyl-omics-targets.cmake -- Installing: /build/reproducible-path/libbpp-phyl-omics-2.4.1/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/bpp-phyl-omics/bpp-phyl-omics-targets-none.cmake make[1]: Leaving directory '/build/reproducible-path/libbpp-phyl-omics-2.4.1/obj-x86_64-linux-gnu' debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/libbpp-phyl-omics-2.4.1' dh_install d-shlibmove --commit \ --t64 \ --multiarch \ --devunversioned \ --exclude-la \ --movedev debian/tmp/usr/include/* usr/include \ --movedev debian/tmp/usr/lib/*/cmake usr/lib/x86_64-linux-gnu \ debian/tmp/usr/lib/*/*.so Library package automatic movement utility --> libbpp-core-dev package exists. --> libbpp-phyl-dev package exists. --> libbpp-seq-dev package exists. --> libbpp-seq-omics-dev package exists. set -e install -d -m 755 debian/libbpp-phyl-omics-dev/usr/lib/x86_64-linux-gnu install -d -m 755 debian/libbpp-phyl-omics3t64/usr/lib/x86_64-linux-gnu mv debian/tmp/usr/lib/x86_64-linux-gnu/libbpp-phyl-omics.a debian/libbpp-phyl-omics-dev/usr/lib/x86_64-linux-gnu mv debian/tmp/usr/lib/x86_64-linux-gnu/libbpp-phyl-omics.so debian/libbpp-phyl-omics-dev/usr/lib/x86_64-linux-gnu mv /build/reproducible-path/libbpp-phyl-omics-2.4.1/debian/tmp/usr/lib/x86_64-linux-gnu/libbpp-phyl-omics.so.3 debian/libbpp-phyl-omics3t64/usr/lib/x86_64-linux-gnu mv /build/reproducible-path/libbpp-phyl-omics-2.4.1/debian/tmp/usr/lib/x86_64-linux-gnu/libbpp-phyl-omics.so.3.0.0 debian/libbpp-phyl-omics3t64/usr/lib/x86_64-linux-gnu PKGDEV=libbpp-phyl-omics-dev PKGSHL=libbpp-phyl-omics3t64 install -d -m 755 debian/libbpp-phyl-omics-dev/usr/include mv debian/tmp/usr/include/Bpp debian/libbpp-phyl-omics-dev/usr/include install -d -m 755 debian/libbpp-phyl-omics-dev/usr/lib/x86_64-linux-gnu mv debian/tmp/usr/lib/x86_64-linux-gnu/cmake debian/libbpp-phyl-omics-dev/usr/lib/x86_64-linux-gnu make[1]: Leaving directory '/build/reproducible-path/libbpp-phyl-omics-2.4.1' dh_installdocs dh_installchangelogs dh_lintian dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'libbpp-phyl-omics-dev' in '../libbpp-phyl-omics-dev_2.4.1-7_amd64.deb'. dpkg-deb: building package 'libbpp-phyl-omics3t64' in '../libbpp-phyl-omics3t64_2.4.1-7_amd64.deb'. dpkg-deb: building package 'libbpp-phyl-omics3t64-dbgsym' in '../libbpp-phyl-omics3t64-dbgsym_2.4.1-7_amd64.deb'. dpkg-genbuildinfo --build=binary -O../libbpp-phyl-omics_2.4.1-7_amd64.buildinfo dpkg-genchanges --build=binary -O../libbpp-phyl-omics_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/1860385 and its subdirectories I: Current time: Fri Jan 9 21:10:56 -12 2026 I: pbuilder-time-stamp: 1768036256 Sun Dec 8 02:47:58 UTC 2024 I: 1st build successful. Starting 2nd build on remote node ionos11-amd64.debian.net. Sun Dec 8 02:47:58 UTC 2024 I: Preparing to do remote build '2' on ionos11-amd64.debian.net. Sun Dec 8 02:51:36 UTC 2024 I: Deleting $TMPDIR on ionos11-amd64.debian.net. Sun Dec 8 02:51:36 UTC 2024 I: libbpp-phyl-omics_2.4.1-7_amd64.changes: Format: 1.8 Date: Fri, 05 Jul 2024 18:10:01 +0200 Source: libbpp-phyl-omics Binary: libbpp-phyl-omics-dev libbpp-phyl-omics3t64 libbpp-phyl-omics3t64-dbgsym Architecture: amd64 Version: 2.4.1-7 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: libbpp-phyl-omics-dev - Bio++ Phylogenetics library: genomics components (development fil libbpp-phyl-omics3t64 - Bio++ Phylogenetics library: genomics components Closes: 1075149 Changes: libbpp-phyl-omics (2.4.1-7) unstable; urgency=medium . * Since every GCC version bump ends up in a bug caused by the need to update symbols files we stop providing symbols for this library Closes: 1075149 * lintian-override for no-symbols-control-file * Standards-Version: 4.7.0 (routine-update) Checksums-Sha1: 9852b8368c74cf0fb79335c3522ff108d5c2a225 128776 libbpp-phyl-omics-dev_2.4.1-7_amd64.deb 5a69dce3ba1f76fd54fbb829619ba3053d849759 2444680 libbpp-phyl-omics3t64-dbgsym_2.4.1-7_amd64.deb b18ab291e2e25c23bd280d861786029e8360d2d1 72804 libbpp-phyl-omics3t64_2.4.1-7_amd64.deb 561562176c8ec7f1384ef16d964917fa8f32462d 7066 libbpp-phyl-omics_2.4.1-7_amd64.buildinfo Checksums-Sha256: 4215486789107c2898e3905157c013a1588d994593fc411b9d70de271e5a417f 128776 libbpp-phyl-omics-dev_2.4.1-7_amd64.deb bd36f9be9c4e51b7224988f54d3b29ed016929f2a38d7811112c33bd7ec2a038 2444680 libbpp-phyl-omics3t64-dbgsym_2.4.1-7_amd64.deb 31e485ace5c69535f100d626f678b3d37cfc4622e7d414119ab2c473d364d092 72804 libbpp-phyl-omics3t64_2.4.1-7_amd64.deb d3770d2b43d73f8ccc863a0dbf5b95d94b2f4c23d204c7a31b9db9f3e4d59eb0 7066 libbpp-phyl-omics_2.4.1-7_amd64.buildinfo Files: 5ac9d77cc60ef572c5eab79c7130b9bb 128776 libdevel optional libbpp-phyl-omics-dev_2.4.1-7_amd64.deb 6098baad853fc22821799f0f9e6372f2 2444680 debug optional libbpp-phyl-omics3t64-dbgsym_2.4.1-7_amd64.deb 7b254e7f38d577fef9e1055ec52460a5 72804 libs optional libbpp-phyl-omics3t64_2.4.1-7_amd64.deb 20f4d60fce292426e5c161631d5226ee 7066 science optional libbpp-phyl-omics_2.4.1-7_amd64.buildinfo Sun Dec 8 02:51:37 UTC 2024 I: diffoscope 284 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_28-41481.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.ccZFoYcK/libbpp-phyl-omics_2.4.1-7.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.ccZFoYcK/libbpp-phyl-omics_2.4.1-7.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.ccZFoYcK/libbpp-phyl-omics_2.4.1-7.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.ccZFoYcK/b1/libbpp-phyl-omics_2.4.1-7_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.ccZFoYcK/b2/libbpp-phyl-omics_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 abc.DotChangesFile ## main (total time: 0.343s) 0.343s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.038s) 0.038s 12 calls diffoscope.comparators.binary.FilesystemFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 678ms CPU time consumed: 678ms Sun Dec 8 02:51:38 UTC 2024 I: diffoscope 284 found no differences in the changes files, and a .buildinfo file also exists. Sun Dec 8 02:51:38 UTC 2024 I: libbpp-phyl-omics from trixie built successfully and reproducibly on amd64. Sun Dec 8 02:51:40 UTC 2024 I: Submitting .buildinfo files to external archives: Sun Dec 8 02:51:40 UTC 2024 I: Submitting 8.0K b1/libbpp-phyl-omics_2.4.1-7_amd64.buildinfo.asc Sun Dec 8 02:51:40 UTC 2024 I: Submitting 8.0K b2/libbpp-phyl-omics_2.4.1-7_amd64.buildinfo.asc Sun Dec 8 02:51:41 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sun Dec 8 02:51:41 UTC 2024 I: Done submitting .buildinfo files. Sun Dec 8 02:51:41 UTC 2024 I: Removing signed libbpp-phyl-omics_2.4.1-7_amd64.buildinfo.asc files: removed './b1/libbpp-phyl-omics_2.4.1-7_amd64.buildinfo.asc' removed './b2/libbpp-phyl-omics_2.4.1-7_amd64.buildinfo.asc'