I: pbuilder: network access will be disabled during build I: Current time: Mon Dec 1 08:06:36 +14 2025 I: pbuilder-time-stamp: 1764525996 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [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/771020/tmp/hooks/D01_modify_environment starting debug: Running on ionos15-amd64. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash '/bin/sh' -> '/bin/bash' lrwxrwxrwx 1 root root 9 Nov 30 18:06 /bin/sh -> /bin/bash I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/771020/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/771020/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="2" [2]="32" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") BASH_VERSION='5.2.32(1)-release' BUILDDIR=/build/reproducible-path BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=amd64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' DIRSTACK=() DISTRIBUTION=unstable EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=x86_64 HOST_ARCH=amd64 IFS=' ' INVOCATION_ID=9300cc7d9fe54026809d8ca7a95885b3 LANG=C LANGUAGE=et_EE:et LC_ALL=C MACHTYPE=x86_64-pc-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=771020 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.s9T4fowL/pbuilderrc_2shx --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.s9T4fowL/b2 --logfile b2/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-14 UID=0 USER=root _='I: set' http_proxy=http://213.165.73.152:3128 I: uname -a Linux i-capture-the-hostname 6.10.11+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.10.11-1~bpo12+1 (2024-10-03) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 2024 /bin -> usr/bin I: user script /srv/workspace/pbuilder/771020/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 ... 19947 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 45.2 MB of archives. After unpacking 213 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 libproc2-0 amd64 2:4.0.4-6 [64.8 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 procps amd64 2:4.0.4-6 [879 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3 [314 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3 [105 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3 [42.9 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.22.5-2 [200 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b1 [68.8 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-5 [1181 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.2-9 [97.2 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-4 [287 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3 [493 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.22.5-2 [723 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 cmake-data all 3.30.5-1 [2223 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-5 [9396 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.1 [699 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 libarchive13t64 amd64 3.7.4-1 [349 kB] Get: 22 http://deb.debian.org/debian unstable/main amd64 libbrotli1 amd64 1.1.0-2+b4 [300 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 libcom-err2 amd64 1.47.1-1 [22.9 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get: 26 http://deb.debian.org/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B] Get: 27 http://deb.debian.org/debian unstable/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-8 [19.6 kB] Get: 30 http://deb.debian.org/debian unstable/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-8 [57.3 kB] Get: 31 http://deb.debian.org/debian unstable/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-3+b1 [188 kB] Get: 32 http://deb.debian.org/debian unstable/main amd64 libnghttp2-14 amd64 1.63.0-1 [74.8 kB] Get: 33 http://deb.debian.org/debian unstable/main amd64 libpsl5t64 amd64 0.21.2-1.1 [56.8 kB] Get: 34 http://deb.debian.org/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b4 [58.5 kB] Get: 35 http://deb.debian.org/debian unstable/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 36 http://deb.debian.org/debian unstable/main amd64 libcurl4t64 amd64 8.10.1-2 [352 kB] Get: 37 http://deb.debian.org/debian unstable/main amd64 libexpat1 amd64 2.6.3-2 [105 kB] Get: 38 http://deb.debian.org/debian unstable/main amd64 libjsoncpp26 amd64 1.9.6-2 [81.6 kB] Get: 39 http://deb.debian.org/debian unstable/main amd64 librhash1 amd64 1.4.5-1 [132 kB] Get: 40 http://deb.debian.org/debian unstable/main amd64 libuv1t64 amd64 1.48.0-6 [148 kB] Get: 41 http://deb.debian.org/debian unstable/main amd64 cmake amd64 3.30.5-1 [11.4 MB] Get: 42 http://deb.debian.org/debian unstable/main amd64 d-shlibs all 0.107 [11.0 kB] Get: 43 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.20 [89.7 kB] Get: 44 http://deb.debian.org/debian unstable/main amd64 libtool all 2.4.7-7 [517 kB] Get: 45 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 46 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 47 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 48 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 49 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 50 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 51 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.22.5-2 [1601 kB] Get: 52 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 53 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 54 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.20 [915 kB] Get: 55 http://deb.debian.org/debian unstable/main amd64 libbpp-core4t64 amd64 2.4.1-13 [616 kB] Get: 56 http://deb.debian.org/debian unstable/main amd64 libbpp-core-dev amd64 2.4.1-13 [957 kB] Get: 57 http://deb.debian.org/debian unstable/main amd64 libbpp-seq12t64 amd64 2.4.1-13 [510 kB] Get: 58 http://deb.debian.org/debian unstable/main amd64 libbpp-phyl12t64 amd64 2.4.1-11 [1670 kB] Get: 59 http://deb.debian.org/debian unstable/main amd64 libbpp-seq-dev amd64 2.4.1-13 [745 kB] Get: 60 http://deb.debian.org/debian unstable/main amd64 libbpp-phyl-dev amd64 2.4.1-11 [2989 kB] Get: 61 http://deb.debian.org/debian unstable/main amd64 libbpp-seq-omics3t64 amd64 2.4.1-12 [230 kB] Get: 62 http://deb.debian.org/debian unstable/main amd64 libbpp-seq-omics-dev amd64 2.4.1-12 [378 kB] Fetched 45.2 MB in 5s (9667 kB/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 ... 19947 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_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../04-libmagic1t64_1%3a5.45-3_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3) ... Selecting previously unselected package file. Preparing to unpack .../05-file_1%3a5.45-3_amd64.deb ... Unpacking file (1:5.45-3) ... 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+b1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b1) ... 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) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../09-bsdextrautils_2.40.2-9_amd64.deb ... Unpacking bsdextrautils (2.40.2-9) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../10-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../11-man-db_2.13.0-1_amd64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../12-m4_1.4.19-4_amd64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../13-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../14-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../15-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../16-autopoint_0.22.5-2_all.deb ... Unpacking autopoint (0.22.5-2) ... Selecting previously unselected package cmake-data. Preparing to unpack .../17-cmake-data_3.30.5-1_all.deb ... Unpacking cmake-data (3.30.5-1) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../18-libicu72_72.1-5_amd64.deb ... Unpacking libicu72:amd64 (72.1-5) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../19-libxml2_2.12.7+dfsg+really2.9.14-0.1_amd64.deb ... Unpacking libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.1) ... Selecting previously unselected package libarchive13t64:amd64. Preparing to unpack .../20-libarchive13t64_3.7.4-1_amd64.deb ... Unpacking libarchive13t64:amd64 (3.7.4-1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../21-libbrotli1_1.1.0-2+b4_amd64.deb ... Unpacking libbrotli1:amd64 (1.1.0-2+b4) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../22-libkrb5support0_1.21.3-3_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-3) ... Selecting previously unselected package libcom-err2:amd64. Preparing to unpack .../23-libcom-err2_1.47.1-1_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.1-1) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../24-libk5crypto3_1.21.3-3_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-3) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../25-libkeyutils1_1.6.3-4_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-4) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../26-libkrb5-3_1.21.3-3_amd64.deb ... Unpacking libkrb5-3:amd64 (1.21.3-3) ... Selecting previously unselected package libgssapi-krb5-2:amd64. 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Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: user script /srv/workspace/pbuilder/771020/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for unstable I: user script /srv/workspace/pbuilder/771020/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/libbpp-phyl-omics-2.4.1/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../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 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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/MaximumLikelihoodDistanceEstimationMafIterator.cpp.o -MF 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-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/OutputTreeMafIterator.cpp.o -MF CMakeFiles/bpp-phyl-omics-static.dir/Bpp/Seq/Io/Maf/OutputTreeMafIterator.cpp.o.d -o CMakeFiles/bpp-phyl-omics-static.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 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/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" /usr/bin/ranlib libbpp-phyl-omics.a [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 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/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 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-static 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: user script /srv/workspace/pbuilder/771020/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/771020/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/771020 and its subdirectories I: Current time: Mon Dec 1 08:07:17 +14 2025 I: pbuilder-time-stamp: 1764526037