Diff of the two buildlogs: -- --- b1/build.log 2025-02-05 16:32:46.921070409 +0000 +++ b2/build.log 2025-02-05 16:37:48.575433097 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Wed Feb 5 04:27:38 -12 2025 -I: pbuilder-time-stamp: 1738772858 +I: Current time: Thu Feb 6 06:33:01 +14 2025 +I: pbuilder-time-stamp: 1738773181 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -26,52 +26,84 @@ dpkg-source: info: applying cross.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/32006/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/25972/tmp/hooks/D01_modify_environment starting +debug: Running on virt32b. +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 Feb 5 16:33 /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/25972/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/25972/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='armhf' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=5 ' - DISTRIBUTION='trixie' - HOME='/root' - HOST_ARCH='armhf' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="37" [3]="1" [4]="release" [5]="arm-unknown-linux-gnueabihf") + BASH_VERSION='5.2.37(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=armhf + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=4 ' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=arm + HOST_ARCH=armhf IFS=' ' - INVOCATION_ID='aba15a2b02864b419537781c28916d02' - 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='32006' - PS1='# ' - PS2='> ' + INVOCATION_ID=3e714a0dee8b453491415507ca4e1341 + LANG=C + LANGUAGE=it_CH:it + LC_ALL=C + MACHTYPE=arm-unknown-linux-gnueabihf + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnueabihf + 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=25972 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.8XcMO9rs/pbuilderrc_9eMq --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.8XcMO9rs/b1 --logfile b1/build.log prank_0.0.170427+dfsg-3.dsc' - SUDO_GID='114' - SUDO_UID='109' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://10.0.0.15:3142/' + 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.8XcMO9rs/pbuilderrc_wpfG --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.8XcMO9rs/b2 --logfile b2/build.log prank_0.0.170427+dfsg-3.dsc' + SUDO_GID=112 + SUDO_UID=106 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://10.0.0.15:3142/ I: uname -a - Linux ff64a 6.1.0-30-arm64 #1 SMP Debian 6.1.124-1 (2025-01-12) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-30-armmp-lpae #1 SMP Debian 6.1.124-1 (2025-01-12) armv7l GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/32006/tmp/hooks/D02_print_environment finished +I: user script /srv/workspace/pbuilder/25972/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -137,7 +169,7 @@ Get: 28 http://deb.debian.org/debian trixie/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 29 http://deb.debian.org/debian trixie/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 30 http://deb.debian.org/debian trixie/main armhf debhelper all 13.24.1 [920 kB] -Fetched 19.7 MB in 7s (2689 kB/s) +Fetched 19.7 MB in 0s (57.4 MB/s) Preconfiguring packages ... Selecting previously unselected package sensible-utils. (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 ... 19568 files and directories currently installed.) @@ -272,7 +304,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/prank-0.0.170427+dfsg/ && 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 > ../prank_0.0.170427+dfsg-3_source.changes +I: user script /srv/workspace/pbuilder/25972/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/25972/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/prank-0.0.170427+dfsg/ && 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 > ../prank_0.0.170427+dfsg-3_source.changes dpkg-buildpackage: info: source package prank dpkg-buildpackage: info: source version 0.0.170427+dfsg-3 dpkg-buildpackage: info: source distribution unstable @@ -301,13 +337,12 @@ debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/prank-0.0.170427+dfsg' dh_auto_build --verbose - cd src && make -j5 "INSTALL=install --strip-program=true" + cd src && make -j4 "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/reproducible-path/prank-0.0.170427+dfsg/src' g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o writefile.o writefile.cpp g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o treenode.o treenode.cpp g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o translatesequences.o translatesequences.cpp g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o terminalsequence.o terminalsequence.cpp -g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o terminalnode.o terminalnode.cpp In file included from ancestralnode.h:24, from hmmodel.h:36, from config.h:31, @@ -317,15 +352,16 @@ 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ In file included from ancestralnode.h:24, - from hmmodel.h:36, - from config.h:31, - from translatesequences.cpp:22: + from writefile.h:25, + from writefile.cpp:27: ./treenode.h: In member function 'virtual bool TreeNode::updateInsertionSite(int, bool)': ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ -In file included from terminalnode.h:23, - from terminalnode.cpp:22: +In file included from ancestralnode.h:24, + from hmmodel.h:36, + from config.h:31, + from translatesequences.cpp:22: ./treenode.h: In member function 'virtual bool TreeNode::updateInsertionSite(int, bool)': ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} @@ -338,15 +374,14 @@ ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ -In file included from ancestralnode.h:24, - from writefile.h:25, - from writefile.cpp:27: +g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o terminalnode.o terminalnode.cpp +In file included from terminalnode.h:23, + from terminalnode.cpp:22: ./treenode.h: In member function 'virtual bool TreeNode::updateInsertionSite(int, bool)': ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o site.o site.cpp -g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o sequence.o sequence.cpp In file included from ancestralnode.h:24, from hmmodel.h:36, from site.cpp:22: @@ -354,6 +389,7 @@ ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ +g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o sequence.o sequence.cpp g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o readnewick.o readnewick.cpp g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o readfile.o readfile.cpp In file included from readnewick.h:29, @@ -363,21 +399,15 @@ 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o readalignment.o readalignment.cpp -g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o pwsite.o pwsite.cpp -g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o pwhirschberg.o pwhirschberg.cpp In file included from readalignment.h:28, from readalignment.cpp:23: treenode.h: In member function 'virtual bool TreeNode::updateInsertionSite(int, bool)': treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ +g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o pwsite.o pwsite.cpp +g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o pwhirschberg.o pwhirschberg.cpp g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o progressivealignment.o progressivealignment.cpp -In file included from readnewick.h:29, - from progressivealignment.cpp:28: -treenode.h: In member function 'virtual bool TreeNode::updateInsertionSite(int, bool)': -treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] - 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} - | ^ In file included from ancestralnode.h:24, from hmmodel.h:36, from config.h:31, @@ -386,6 +416,12 @@ ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ +In file included from readnewick.h:29, + from progressivealignment.cpp:28: +treenode.h: In member function 'virtual bool TreeNode::updateInsertionSite(int, bool)': +treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] + 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} + | ^ g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o prank.o prank.cpp In file included from ancestralnode.h:24, from hmmodel.h:36, @@ -397,6 +433,7 @@ 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o postprobability.o postprobability.cpp +g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o phylomatchscore.o phylomatchscore.cpp In file included from ancestralnode.h:24, from hmmodel.h:36, from config.h:31, @@ -405,7 +442,6 @@ ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ -g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o phylomatchscore.o phylomatchscore.cpp In file included from ancestralnode.h:24, from hmmodel.h:36, from config.h:31, @@ -425,6 +461,8 @@ 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o hirschberg.o hirschberg.cpp +g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o guidetree.o guidetree.cpp +g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o fullprobability.o fullprobability.cpp In file included from ancestralnode.h:24, from hmmodel.h:36, from config.h:31, @@ -433,7 +471,6 @@ ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ -g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o guidetree.o guidetree.cpp In file included from ancestralnode.h:24, from hmmodel.h:36, from config.h:31, @@ -442,7 +479,6 @@ ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ -g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o fullprobability.o fullprobability.cpp In file included from ancestralnode.h:24, from hmmodel.h:36, from config.h:31, @@ -451,7 +487,6 @@ ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ -g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o flmatrix.o flmatrix.cpp guidetree.cpp: In member function 'void GuideTree::computeTree(std::vector >*, std::vector >*, IntMatrix*)': guidetree.cpp:162:37: warning: '%i' directive writing between 1 and 10 bytes into a region of size between 6 and 15 [-Wformat-overflow=] 162 | sprintf(prop,"%i to %i",i,j); @@ -471,9 +506,6 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ -g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o eigen.o eigen.cpp -g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o dbmatrix.o dbmatrix.cpp -g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o characterprobability.o characterprobability.cpp hmmodel.cpp: In member function 'void HMModel::readModel(const char*)': hmmodel.cpp:338:31: warning: '%i' directive writing between 1 and 11 bytes into a region of size 5 [-Wformat-overflow=] 338 | sprintf(str,"state%i",l); @@ -494,6 +526,11 @@ | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ +g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o flmatrix.o flmatrix.cpp +g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o eigen.o eigen.cpp +g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o dbmatrix.o dbmatrix.cpp +g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o characterprobability.o characterprobability.cpp +g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o boolmatrix.o boolmatrix.cpp In file included from ancestralnode.h:24, from hmmodel.h:36, from config.h:31, @@ -502,7 +539,6 @@ ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ -g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o boolmatrix.o boolmatrix.cpp g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o ancestralsequence.o ancestralsequence.cpp In file included from ancestralnode.h:24, from hmmodel.h:36, @@ -545,6 +581,7 @@ 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ g++ -c -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/prank-0.0.170427+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -std=gnu++98 -pipe -O3 -I. -I/usr/include -o bppancestors.o bppancestors.cpp +pod2man --utf8 --center "The Probabilistic Alignment Kit" -release="v.121211" --section=1 --name="PRANK" prank.1.pod >prank.1 In file included from ancestralnode.h:24, from bppancestors.h:24, from bppancestors.cpp:29: @@ -552,7 +589,6 @@ ./treenode.h:353:63: warning: no return statement in function returning non-void [-Wreturn-type] 353 | virtual bool updateInsertionSite(int i, bool has_parent) {} | ^ -pod2man --utf8 --center "The Probabilistic Alignment Kit" -release="v.121211" --section=1 --name="PRANK" prank.1.pod >prank.1 g++ -o prank writefile.o treenode.o translatesequences.o terminalsequence.o terminalnode.o site.o sequence.o readnewick.o readfile.o readalignment.o pwsite.o pwhirschberg.o progressivealignment.o prank.o postprobability.o phylomatchscore.o node.o intmatrix.o hmmodel.o hirschberg.o guidetree.o fullprobability.o flmatrix.o eigen.o dbmatrix.o characterprobability.o boolmatrix.o ancestralsequence.o ancestralnode.o check_version.o exonerate_reads.o mafft_alignment.o bppancestors.o -Wl,-z,relro -Wl,-z,now make[2]: Leaving directory '/build/reproducible-path/prank-0.0.170427+dfsg/src' make[1]: Leaving directory '/build/reproducible-path/prank-0.0.170427+dfsg' @@ -593,8 +629,8 @@ dh_gencontrol -O--sourcedirectory=src dh_md5sums -O--sourcedirectory=src dh_builddeb -O--sourcedirectory=src -dpkg-deb: building package 'prank-dbgsym' in '../prank-dbgsym_0.0.170427+dfsg-3_armhf.deb'. dpkg-deb: building package 'prank' in '../prank_0.0.170427+dfsg-3_armhf.deb'. +dpkg-deb: building package 'prank-dbgsym' in '../prank-dbgsym_0.0.170427+dfsg-3_armhf.deb'. dpkg-genbuildinfo --build=binary -O../prank_0.0.170427+dfsg-3_armhf.buildinfo dpkg-genchanges --build=binary -O../prank_0.0.170427+dfsg-3_armhf.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -602,12 +638,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/25972/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/25972/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/32006 and its subdirectories -I: Current time: Wed Feb 5 04:32:42 -12 2025 -I: pbuilder-time-stamp: 1738773162 +I: removing directory /srv/workspace/pbuilder/25972 and its subdirectories +I: Current time: Thu Feb 6 06:37:44 +14 2025 +I: pbuilder-time-stamp: 1738773464