Diff of the two buildlogs: -- --- b1/build.log 2025-01-29 00:05:34.888123142 +0000 +++ b2/build.log 2025-01-29 00:12:54.640203063 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Tue Jan 28 11:59:49 -12 2025 -I: pbuilder-time-stamp: 1738108789 +I: Current time: Tue Mar 3 20:33:38 +14 2026 +I: pbuilder-time-stamp: 1772519618 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -22,52 +22,84 @@ dpkg-source: info: unpacking libpdb-redo_3.2.1-1.debian.tar.xz I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/1400136/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/2326553/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 Mar 3 06:33 /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/2326553/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/2326553/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=20 ' - DISTRIBUTION='unstable' - HOME='/root' - HOST_ARCH='amd64' + 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]="x86_64-pc-linux-gnu") + 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=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='4ea3f7a167d14faf804784ba741d35a3' - 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='1400136' - PS1='# ' - PS2='> ' + INVOCATION_ID=361a7fb622734d7cbfc62004b6d48d8d + 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=2326553 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.ihGY6GiB/pbuilderrc_FgAi --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.ihGY6GiB/b1 --logfile b1/build.log libpdb-redo_3.2.1-1.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://46.16.76.132:3128' + 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.ihGY6GiB/pbuilderrc_xzJj --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.ihGY6GiB/b2 --logfile b2/build.log libpdb-redo_3.2.1-1.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 ionos11-amd64 6.1.0-30-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.124-1 (2025-01-12) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.12.9+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.9-1~bpo12+1 (2025-01-19) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/1400136/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/2326553/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -258,7 +290,7 @@ Get: 129 http://deb.debian.org/debian unstable/main amd64 libgsl-dev amd64 2.8+dfsg-5 [1222 kB] Get: 130 http://deb.debian.org/debian unstable/main amd64 libnewuoa0 amd64 0.1.2-1 [18.6 kB] Get: 131 http://deb.debian.org/debian unstable/main amd64 libnewuoa-dev amd64 0.1.2-1 [7508 B] -Fetched 136 MB in 7s (19.7 MB/s) +Fetched 136 MB in 6s (22.1 MB/s) Preconfiguring packages ... Selecting previously unselected package libproc2-0:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19843 files and directories currently installed.) @@ -798,7 +830,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/libpdb-redo-3.2.1/ && 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 > ../libpdb-redo_3.2.1-1_source.changes +I: user script /srv/workspace/pbuilder/2326553/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/2326553/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/libpdb-redo-3.2.1/ && 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 > ../libpdb-redo_3.2.1-1_source.changes dpkg-buildpackage: info: source package libpdb-redo dpkg-buildpackage: info: source version 3.2.1-1 dpkg-buildpackage: info: source distribution unstable @@ -853,8 +889,8 @@ -- Performing Test COMPILER_HAS_HIDDEN_INLINE_VISIBILITY - Success -- Performing Test COMPILER_HAS_DEPRECATED_ATTR -- Performing Test COMPILER_HAS_DEPRECATED_ATTR - Success --- Configuring done (11.2s) --- Generating done (0.2s) +-- Configuring done (2.2s) +-- Generating done (0.0s) CMake Warning: Manually-specified variables were not used by the project: @@ -867,7 +903,7 @@ -- Build files have been written to: /build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/reproducible-path/libpdb-redo-3.2.1' dh_auto_build - cd obj-x86_64-linux-gnu && make -j20 "INSTALL=install --strip-program=true" VERBOSE=1 + cd obj-x86_64-linux-gnu && make -j42 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/libpdb-redo-3.2.1 -B/build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu//CMakeFiles/progress.marks @@ -879,29 +915,29 @@ make[3]: Leaving directory '/build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu' make -f CMakeFiles/pdb-redo.dir/build.make CMakeFiles/pdb-redo.dir/build make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu' -[ 5%] Building CXX object CMakeFiles/pdb-redo.dir/src/AtomShape.cpp.o -[ 11%] Building CXX object CMakeFiles/pdb-redo.dir/src/BondMap.cpp.o -/usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.2.1/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.2.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -fPIC -MD -MT CMakeFiles/pdb-redo.dir/src/AtomShape.cpp.o -MF CMakeFiles/pdb-redo.dir/src/AtomShape.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/AtomShape.cpp.o -c /build/reproducible-path/libpdb-redo-3.2.1/src/AtomShape.cpp -[ 17%] Building CXX object CMakeFiles/pdb-redo.dir/src/ClipperWrapper.cpp.o +[ 5%] Building CXX object CMakeFiles/pdb-redo.dir/src/BondMap.cpp.o +[ 11%] Building CXX object CMakeFiles/pdb-redo.dir/src/ClipperWrapper.cpp.o +[ 17%] Building CXX object CMakeFiles/pdb-redo.dir/src/Compound.cpp.o /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.2.1/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.2.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -fPIC -MD -MT CMakeFiles/pdb-redo.dir/src/BondMap.cpp.o -MF CMakeFiles/pdb-redo.dir/src/BondMap.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/BondMap.cpp.o -c /build/reproducible-path/libpdb-redo-3.2.1/src/BondMap.cpp -[ 23%] Building CXX object CMakeFiles/pdb-redo.dir/src/Compound.cpp.o /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.2.1/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.2.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -fPIC -MD -MT CMakeFiles/pdb-redo.dir/src/ClipperWrapper.cpp.o -MF CMakeFiles/pdb-redo.dir/src/ClipperWrapper.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/ClipperWrapper.cpp.o -c /build/reproducible-path/libpdb-redo-3.2.1/src/ClipperWrapper.cpp -[ 29%] Building CXX object CMakeFiles/pdb-redo.dir/src/DistanceMap.cpp.o -[ 35%] Building CXX object CMakeFiles/pdb-redo.dir/src/MapMaker.cpp.o /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.2.1/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.2.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -fPIC -MD -MT CMakeFiles/pdb-redo.dir/src/Compound.cpp.o -MF CMakeFiles/pdb-redo.dir/src/Compound.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/Compound.cpp.o -c /build/reproducible-path/libpdb-redo-3.2.1/src/Compound.cpp -/usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.2.1/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.2.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -fPIC -MD -MT CMakeFiles/pdb-redo.dir/src/DistanceMap.cpp.o -MF CMakeFiles/pdb-redo.dir/src/DistanceMap.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/DistanceMap.cpp.o -c /build/reproducible-path/libpdb-redo-3.2.1/src/DistanceMap.cpp +[ 35%] Building CXX object CMakeFiles/pdb-redo.dir/src/AtomShape.cpp.o +[ 35%] Building CXX object CMakeFiles/pdb-redo.dir/src/MapMaker.cpp.o +[ 41%] Building CXX object CMakeFiles/pdb-redo.dir/src/DistanceMap.cpp.o +[ 41%] Building CXX object CMakeFiles/pdb-redo.dir/src/Ramachandran.cpp.o +[ 47%] Building CXX object CMakeFiles/pdb-redo.dir/src/ResolutionCalculator.cpp.o /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.2.1/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.2.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -fPIC -MD -MT CMakeFiles/pdb-redo.dir/src/MapMaker.cpp.o -MF CMakeFiles/pdb-redo.dir/src/MapMaker.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/MapMaker.cpp.o -c /build/reproducible-path/libpdb-redo-3.2.1/src/MapMaker.cpp -[ 41%] Building CXX object CMakeFiles/pdb-redo.dir/src/ResolutionCalculator.cpp.o -[ 47%] Building CXX object CMakeFiles/pdb-redo.dir/src/Ramachandran.cpp.o +[ 52%] Building CXX object CMakeFiles/pdb-redo.dir/src/Statistics.cpp.o +[ 58%] Building CXX object CMakeFiles/pdb-redo.dir/src/SkipList.cpp.o +/usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.2.1/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.2.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -fPIC -MD -MT CMakeFiles/pdb-redo.dir/src/AtomShape.cpp.o -MF CMakeFiles/pdb-redo.dir/src/AtomShape.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/AtomShape.cpp.o -c /build/reproducible-path/libpdb-redo-3.2.1/src/AtomShape.cpp +[ 64%] Building CXX object CMakeFiles/pdb-redo.dir/src/TLS.cpp.o +/usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.2.1/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.2.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -fPIC -MD -MT CMakeFiles/pdb-redo.dir/src/DistanceMap.cpp.o -MF CMakeFiles/pdb-redo.dir/src/DistanceMap.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/DistanceMap.cpp.o -c /build/reproducible-path/libpdb-redo-3.2.1/src/DistanceMap.cpp +[ 70%] Building CXX object CMakeFiles/pdb-redo.dir/src/Version.cpp.o /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.2.1/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.2.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -fPIC -MD -MT CMakeFiles/pdb-redo.dir/src/Ramachandran.cpp.o -MF CMakeFiles/pdb-redo.dir/src/Ramachandran.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/Ramachandran.cpp.o -c /build/reproducible-path/libpdb-redo-3.2.1/src/Ramachandran.cpp /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.2.1/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.2.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -fPIC -MD -MT CMakeFiles/pdb-redo.dir/src/ResolutionCalculator.cpp.o -MF CMakeFiles/pdb-redo.dir/src/ResolutionCalculator.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/ResolutionCalculator.cpp.o -c /build/reproducible-path/libpdb-redo-3.2.1/src/ResolutionCalculator.cpp -[ 52%] Building CXX object CMakeFiles/pdb-redo.dir/src/SkipList.cpp.o /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.2.1/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.2.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -fPIC -MD -MT CMakeFiles/pdb-redo.dir/src/SkipList.cpp.o -MF CMakeFiles/pdb-redo.dir/src/SkipList.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/SkipList.cpp.o -c /build/reproducible-path/libpdb-redo-3.2.1/src/SkipList.cpp -[ 58%] Building CXX object CMakeFiles/pdb-redo.dir/src/TLS.cpp.o -[ 64%] Building CXX object CMakeFiles/pdb-redo.dir/src/Statistics.cpp.o /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.2.1/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.2.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -fPIC -MD -MT CMakeFiles/pdb-redo.dir/src/Statistics.cpp.o -MF CMakeFiles/pdb-redo.dir/src/Statistics.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/Statistics.cpp.o -c /build/reproducible-path/libpdb-redo-3.2.1/src/Statistics.cpp /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.2.1/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.2.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -fPIC -MD -MT CMakeFiles/pdb-redo.dir/src/TLS.cpp.o -MF CMakeFiles/pdb-redo.dir/src/TLS.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/TLS.cpp.o -c /build/reproducible-path/libpdb-redo-3.2.1/src/TLS.cpp -[ 70%] Building CXX object CMakeFiles/pdb-redo.dir/src/Version.cpp.o /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -Dpdb_redo_EXPORTS -I/build/reproducible-path/libpdb-redo-3.2.1/include -I/usr/include/eigen3 -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.2.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -fPIC -MD -MT CMakeFiles/pdb-redo.dir/src/Version.cpp.o -MF CMakeFiles/pdb-redo.dir/src/Version.cpp.o.d -o CMakeFiles/pdb-redo.dir/src/Version.cpp.o -c /build/reproducible-path/libpdb-redo-3.2.1/src/Version.cpp [ 76%] Linking CXX shared library libpdb-redo.so /usr/bin/cmake -E cmake_link_script CMakeFiles/pdb-redo.dir/link.txt --verbose=1 @@ -910,21 +946,21 @@ make[3]: Leaving directory '/build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu' [ 76%] Built target pdb-redo make -f test/CMakeFiles/pdb-redo-unit-test.dir/build.make test/CMakeFiles/pdb-redo-unit-test.dir/depend -make -f test/CMakeFiles/restr2ccd-test.dir/build.make test/CMakeFiles/restr2ccd-test.dir/depend make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu' cd /build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libpdb-redo-3.2.1 /build/reproducible-path/libpdb-redo-3.2.1/test /build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu /build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu/test /build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu/test/CMakeFiles/pdb-redo-unit-test.dir/DependInfo.cmake "--color=" +make -f test/CMakeFiles/restr2ccd-test.dir/build.make test/CMakeFiles/restr2ccd-test.dir/depend make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu' cd /build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libpdb-redo-3.2.1 /build/reproducible-path/libpdb-redo-3.2.1/test /build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu /build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu/test /build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu/test/CMakeFiles/restr2ccd-test.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu' make -f test/CMakeFiles/pdb-redo-unit-test.dir/build.make test/CMakeFiles/pdb-redo-unit-test.dir/build -make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu' make -f test/CMakeFiles/restr2ccd-test.dir/build.make test/CMakeFiles/restr2ccd-test.dir/build make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu' -[ 82%] Building CXX object test/CMakeFiles/pdb-redo-unit-test.dir/pdb-redo-unit-test.cpp.o -cd /build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu/test && /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -I/build/reproducible-path/libpdb-redo-3.2.1/include -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.2.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -MD -MT test/CMakeFiles/pdb-redo-unit-test.dir/pdb-redo-unit-test.cpp.o -MF CMakeFiles/pdb-redo-unit-test.dir/pdb-redo-unit-test.cpp.o.d -o CMakeFiles/pdb-redo-unit-test.dir/pdb-redo-unit-test.cpp.o -c /build/reproducible-path/libpdb-redo-3.2.1/test/pdb-redo-unit-test.cpp -[ 88%] Building CXX object test/CMakeFiles/restr2ccd-test.dir/restr2ccd-test.cpp.o +make[3]: Entering directory '/build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu' +[ 82%] Building CXX object test/CMakeFiles/restr2ccd-test.dir/restr2ccd-test.cpp.o cd /build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu/test && /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -I/build/reproducible-path/libpdb-redo-3.2.1/include -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.2.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -MD -MT test/CMakeFiles/restr2ccd-test.dir/restr2ccd-test.cpp.o -MF CMakeFiles/restr2ccd-test.dir/restr2ccd-test.cpp.o.d -o CMakeFiles/restr2ccd-test.dir/restr2ccd-test.cpp.o -c /build/reproducible-path/libpdb-redo-3.2.1/test/restr2ccd-test.cpp +[ 88%] Building CXX object test/CMakeFiles/pdb-redo-unit-test.dir/pdb-redo-unit-test.cpp.o +cd /build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu/test && /usr/bin/c++ -DCACHE_DIR=\"/var/cache/libcifpp\" -DDATA_DIR=\"/usr/share/libcifpp\" -I/build/reproducible-path/libpdb-redo-3.2.1/include -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.2.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -std=gnu++20 -MD -MT test/CMakeFiles/pdb-redo-unit-test.dir/pdb-redo-unit-test.cpp.o -MF CMakeFiles/pdb-redo-unit-test.dir/pdb-redo-unit-test.cpp.o.d -o CMakeFiles/pdb-redo-unit-test.dir/pdb-redo-unit-test.cpp.o -c /build/reproducible-path/libpdb-redo-3.2.1/test/pdb-redo-unit-test.cpp [ 94%] Linking CXX executable restr2ccd-test cd /build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/restr2ccd-test.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libpdb-redo-3.2.1=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -Wno-unused-parameter -Wno-missing-field-initializers -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/restr2ccd-test.dir/link.d "CMakeFiles/restr2ccd-test.dir/restr2ccd-test.cpp.o" -o restr2ccd-test -Wl,-rpath,/build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu ../libpdb-redo.so.3.2.1 /usr/lib/libCatch2.a /usr/lib/x86_64-linux-gnu/libcifpp.so.7.0.9 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libnewuoa.so.0.1.2 /usr/lib/x86_64-linux-gnu/libclipper-ccp4.so /usr/lib/x86_64-linux-gnu/libclipper-contrib.so /usr/lib/x86_64-linux-gnu/libclipper-core.so /usr/lib/x86_64-linux-gnu/libccp4c.so @@ -939,10 +975,10 @@ /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu' dh_auto_test - cd obj-x86_64-linux-gnu && make -j20 test ARGS\+=--verbose ARGS\+=-j20 + cd obj-x86_64-linux-gnu && make -j42 test ARGS\+=--verbose ARGS\+=-j42 make[1]: Entering directory '/build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu' Running tests... -/usr/bin/ctest --force-new-ctest-process --verbose -j20 +/usr/bin/ctest --force-new-ctest-process --verbose -j42 UpdateCTestConfiguration from :/build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu/DartConfiguration.tcl Parse Config file:/build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu/DartConfiguration.tcl UpdateCTestConfiguration from :/build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu/DartConfiguration.tcl @@ -968,7 +1004,7 @@ 2: Working Directory: /build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu/test 2: Test timeout computed to be: 1500 2: CCD components.cif resource was not found -2: Randomness seeded to: 2563482714 +2: Randomness seeded to: 3780581503 2: Could not load the mon_lib_list.cif file from CCP4, please make sure you have installed CCP4 and sourced the environment. 2: 2: Configuration error: @@ -1003,8 +1039,8 @@ 2: =============================================================================== 2: All tests passed (12 assertions in 1 test case) 2: -1/2 Test #2: restr2ccd-test ................... Passed 0.06 sec -1: Randomness seeded to: 4098579770 +1/2 Test #2: restr2ccd-test ................... Passed 0.02 sec +1: Randomness seeded to: 2981781245 1: Reading map from "/build/reproducible-path/libpdb-redo-3.2.1/test/../examples/1cbs_map.mtz" 1: with labels: FB: FWT,PHWT 1: with labels: FD: DELFWT,PHDELWT @@ -1149,16 +1185,16 @@ 1: =============================================================================== 1: All tests passed (738136 assertions in 7 test cases) 1: -2/2 Test #1: pdb-redo-unit-test ............... Passed 5.93 sec +2/2 Test #1: pdb-redo-unit-test ............... Passed 3.24 sec 100% tests passed, 0 tests failed out of 2 -Total Test time (real) = 5.94 sec +Total Test time (real) = 3.25 sec make[1]: Leaving directory '/build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install - cd obj-x86_64-linux-gnu && make -j20 install DESTDIR=/build/reproducible-path/libpdb-redo-3.2.1/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" + cd obj-x86_64-linux-gnu && make -j42 install DESTDIR=/build/reproducible-path/libpdb-redo-3.2.1/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/libpdb-redo-3.2.1 -B/build/reproducible-path/libpdb-redo-3.2.1/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall @@ -1174,21 +1210,21 @@ -- Installing: /build/reproducible-path/libpdb-redo-3.2.1/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/pdb-redo/pdb-redoTargets.cmake -- Installing: /build/reproducible-path/libpdb-redo-3.2.1/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/pdb-redo/pdb-redoTargets-none.cmake -- Installing: /build/reproducible-path/libpdb-redo-3.2.1/debian/tmp/usr/include/pdb-redo +-- Installing: /build/reproducible-path/libpdb-redo-3.2.1/debian/tmp/usr/include/pdb-redo/Restraints.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.2.1/debian/tmp/usr/include/pdb-redo/Version.hpp --- Installing: /build/reproducible-path/libpdb-redo-3.2.1/debian/tmp/usr/include/pdb-redo/SkipList.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.2.1/debian/tmp/usr/include/pdb-redo/MapMaker.hpp --- Installing: /build/reproducible-path/libpdb-redo-3.2.1/debian/tmp/usr/include/pdb-redo/DistanceMap.hpp --- Installing: /build/reproducible-path/libpdb-redo-3.2.1/debian/tmp/usr/include/pdb-redo/Compound.hpp --- Installing: /build/reproducible-path/libpdb-redo-3.2.1/debian/tmp/usr/include/pdb-redo/Minimizer.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.2.1/debian/tmp/usr/include/pdb-redo/Statistics.hpp +-- Installing: /build/reproducible-path/libpdb-redo-3.2.1/debian/tmp/usr/include/pdb-redo/DistanceMap.hpp +-- Installing: /build/reproducible-path/libpdb-redo-3.2.1/debian/tmp/usr/include/pdb-redo/Ramachandran.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.2.1/debian/tmp/usr/include/pdb-redo/ClipperWrapper.hpp --- Installing: /build/reproducible-path/libpdb-redo-3.2.1/debian/tmp/usr/include/pdb-redo/exports.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.2.1/debian/tmp/usr/include/pdb-redo/TLS.hpp +-- Installing: /build/reproducible-path/libpdb-redo-3.2.1/debian/tmp/usr/include/pdb-redo/exports.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.2.1/debian/tmp/usr/include/pdb-redo/ResolutionCalculator.hpp --- Installing: /build/reproducible-path/libpdb-redo-3.2.1/debian/tmp/usr/include/pdb-redo/Ramachandran.hpp --- Installing: /build/reproducible-path/libpdb-redo-3.2.1/debian/tmp/usr/include/pdb-redo/BondMap.hpp +-- Installing: /build/reproducible-path/libpdb-redo-3.2.1/debian/tmp/usr/include/pdb-redo/Minimizer.hpp +-- Installing: /build/reproducible-path/libpdb-redo-3.2.1/debian/tmp/usr/include/pdb-redo/Compound.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.2.1/debian/tmp/usr/include/pdb-redo/AtomShape.hpp --- Installing: /build/reproducible-path/libpdb-redo-3.2.1/debian/tmp/usr/include/pdb-redo/Restraints.hpp +-- Installing: /build/reproducible-path/libpdb-redo-3.2.1/debian/tmp/usr/include/pdb-redo/BondMap.hpp +-- Installing: /build/reproducible-path/libpdb-redo-3.2.1/debian/tmp/usr/include/pdb-redo/SkipList.hpp -- Installing: /build/reproducible-path/libpdb-redo-3.2.1/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/pdb-redo/pdb-redoConfig.cmake -- Installing: /build/reproducible-path/libpdb-redo-3.2.1/debian/tmp/usr/lib/x86_64-linux-gnu/cmake/pdb-redo/pdb-redoConfigVersion.cmake -- Installing: /build/reproducible-path/libpdb-redo-3.2.1/debian/tmp/usr/lib/x86_64-linux-gnu/pkgconfig/libpdb-redo.pc @@ -1212,8 +1248,8 @@ dh_md5sums dh_builddeb dpkg-deb: building package 'libpdb-redo-dev' in '../libpdb-redo-dev_3.2.1-1_amd64.deb'. -dpkg-deb: building package 'libpdb-redo3-dbgsym' in '../libpdb-redo3-dbgsym_3.2.1-1_amd64.deb'. dpkg-deb: building package 'libpdb-redo3' in '../libpdb-redo3_3.2.1-1_amd64.deb'. +dpkg-deb: building package 'libpdb-redo3-dbgsym' in '../libpdb-redo3-dbgsym_3.2.1-1_amd64.deb'. dpkg-genbuildinfo --build=binary -O../libpdb-redo_3.2.1-1_amd64.buildinfo dpkg-genchanges --build=binary -O../libpdb-redo_3.2.1-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -1221,12 +1257,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/2326553/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/2326553/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/1400136 and its subdirectories -I: Current time: Tue Jan 28 12:05:34 -12 2025 -I: pbuilder-time-stamp: 1738109134 +I: removing directory /srv/workspace/pbuilder/2326553 and its subdirectories +I: Current time: Tue Mar 3 20:35:53 +14 2026 +I: pbuilder-time-stamp: 1772519753