Diff of the two buildlogs: -- --- b1/build.log 2025-09-01 15:40:54.609649868 +0000 +++ b2/build.log 2025-09-01 16:09:32.663802726 +0000 @@ -1,6 +1,7 @@ +W: cgroups are not available on the host, not using them. I: pbuilder: network access will be disabled during build -I: Current time: Sun Oct 4 09:42:46 -12 2026 -I: pbuilder-time-stamp: 1791150166 +I: Current time: Tue Sep 2 05:47:47 +14 2025 +I: pbuilder-time-stamp: 1756741667 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-reproducible-base.tgz] I: copying local configuration @@ -26,53 +27,84 @@ dpkg-source: info: applying no_atlas.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/2430434/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/128957/tmp/hooks/D01_modify_environment starting +debug: Running on ionos11-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 Sep 1 15:47 /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/128957/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/128957/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='amd64' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' - DISTRIBUTION='forky' - 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=40 ' + DIRSTACK=() + DISTRIBUTION=forky + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='e8c468d15ed64b2e9f5df6ff036171ef' - 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='2430434' - PS1='# ' - PS2='> ' + 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=128957 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.tQvE6vyr/pbuilderrc_TKXL --distribution forky --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.tQvE6vyr/b1 --logfile b1/build.log plink2_2.00~a6.9-250129+dfsg-1.dsc' - SUDO_GID='110' - SUDO_HOME='/var/lib/jenkins' - SUDO_UID='105' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://213.165.73.152:3128' + 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.tQvE6vyr/pbuilderrc_5PfB --distribution forky --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.tQvE6vyr/b2 --logfile b2/build.log plink2_2.00~a6.9-250129+dfsg-1.dsc' + SUDO_GID=111 + SUDO_HOME=/var/lib/jenkins + SUDO_UID=106 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://46.16.76.132:3128 I: uname -a - Linux ionos5-amd64 6.12.41+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.41-1 (2025-08-12) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.12.41+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.41-1 (2025-08-12) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/2430434/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/128957/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -162,7 +194,7 @@ Get: 39 http://deb.debian.org/debian forky/main amd64 libsimde-dev all 0.8.2-3 [467 kB] Get: 40 http://deb.debian.org/debian forky/main amd64 libzstd-dev amd64 1.5.7+dfsg-1 [371 kB] Get: 41 http://deb.debian.org/debian forky/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] -Fetched 21.9 MB in 1s (16.1 MB/s) +Fetched 21.9 MB in 8s (2809 kB/s) Preconfiguring packages ... Selecting previously unselected package liblocale-gettext-perl. (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 ... 19897 files and directories currently installed.) @@ -345,7 +377,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/plink2-2.00~a6.9-250129+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 > ../plink2_2.00~a6.9-250129+dfsg-1_source.changes +I: user script /srv/workspace/pbuilder/128957/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for forky +I: user script /srv/workspace/pbuilder/128957/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/plink2-2.00~a6.9-250129+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 > ../plink2_2.00~a6.9-250129+dfsg-1_source.changes dpkg-buildpackage: info: source package plink2 dpkg-buildpackage: info: source version 2.00~a6.9-250129+dfsg-1 dpkg-buildpackage: info: source distribution unstable @@ -357,7 +393,7 @@ debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg' dh_auto_clean - cd build_dynamic && make -j42 clean + cd build_dynamic && make -j40 clean make[2]: Entering directory '/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg/build_dynamic' rm -f *.o rm -f plink2 @@ -388,7 +424,7 @@ make[2]: Entering directory '/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg' rm -f *.o include/*.o zstd/lib/common/*.o zstd/lib/compress/*.o zstd/lib/decompress/*.o pgenlibr/src/*.a pgenlibr/src/*.o pgenlibr/src/Makevars pgenlibr/src/pgenlibr.so bin/plink2 bin/pgen_compress make[2]: Leaving directory '/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg' - cd build_dynamic && make -j42 "INSTALL=install --strip-program=true" SFX=-avx2 + cd build_dynamic && make -j40 "INSTALL=install --strip-program=true" SFX=-avx2 make[2]: Entering directory '/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg/build_dynamic' cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -DIGNORE_BUNDLED_LIBDEFLATE -mavx2 -mbmi -mbmi2 -mlzcnt -mfma -O2 -std=gnu99 -DZSTD_MULTITHREAD -DIGNORE_BUNDLED_ZSTD -Wall -Wextra -Wshadow -Wformat-security ../include/SFMT.c -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -DIGNORE_BUNDLED_LIBDEFLATE -mavx2 -mbmi -mbmi2 -mlzcnt -mfma -std=c++11 -O2 -DZSTD_MULTITHREAD -DIGNORE_BUNDLED_ZSTD -Wall -Wextra -Wshadow -Wformat-security -Wold-style-cast ../include/plink2_base.cc ../include/plink2_bits.cc ../include/pgenlib_misc.cc ../include/pgenlib_read.cc ../include/pgenlib_write.cc ../pgen_compress.cc -o pgen_compress-avx2 @@ -462,7 +498,7 @@ make[2]: Entering directory '/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg' rm -f *.o include/*.o zstd/lib/common/*.o zstd/lib/compress/*.o zstd/lib/decompress/*.o pgenlibr/src/*.a pgenlibr/src/*.o pgenlibr/src/Makevars pgenlibr/src/pgenlibr.so bin/plink2 bin/pgen_compress make[2]: Leaving directory '/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg' - cd build_dynamic && make -j42 "INSTALL=install --strip-program=true" SFX=-avx + cd build_dynamic && make -j40 "INSTALL=install --strip-program=true" SFX=-avx make[2]: Entering directory '/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg/build_dynamic' cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -DIGNORE_BUNDLED_LIBDEFLATE -mavx -O2 -std=gnu99 -DZSTD_MULTITHREAD -DIGNORE_BUNDLED_ZSTD -Wall -Wextra -Wshadow -Wformat-security ../include/SFMT.c -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -DIGNORE_BUNDLED_LIBDEFLATE -mavx -std=c++11 -O2 -DZSTD_MULTITHREAD -DIGNORE_BUNDLED_ZSTD -Wall -Wextra -Wshadow -Wformat-security -Wold-style-cast ../include/plink2_base.cc ../include/plink2_bits.cc ../include/pgenlib_misc.cc ../include/pgenlib_read.cc ../include/pgenlib_write.cc ../pgen_compress.cc -o pgen_compress-avx @@ -531,7 +567,7 @@ make[2]: Entering directory '/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg' rm -f *.o include/*.o zstd/lib/common/*.o zstd/lib/compress/*.o zstd/lib/decompress/*.o pgenlibr/src/*.a pgenlibr/src/*.o pgenlibr/src/Makevars pgenlibr/src/pgenlibr.so bin/plink2 bin/pgen_compress make[2]: Leaving directory '/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg' - cd build_dynamic && make -j42 "INSTALL=install --strip-program=true" SFX=-sse4.1 + cd build_dynamic && make -j40 "INSTALL=install --strip-program=true" SFX=-sse4.1 make[2]: Entering directory '/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg/build_dynamic' cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -DIGNORE_BUNDLED_LIBDEFLATE -msse4.1 -O2 -std=gnu99 -DZSTD_MULTITHREAD -DIGNORE_BUNDLED_ZSTD -Wall -Wextra -Wshadow -Wformat-security ../include/SFMT.c -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -DIGNORE_BUNDLED_LIBDEFLATE -msse4.1 -std=c++11 -O2 -DZSTD_MULTITHREAD -DIGNORE_BUNDLED_ZSTD -Wall -Wextra -Wshadow -Wformat-security -Wold-style-cast ../include/plink2_base.cc ../include/plink2_bits.cc ../include/pgenlib_misc.cc ../include/pgenlib_read.cc ../include/pgenlib_write.cc ../pgen_compress.cc -o pgen_compress-sse4.1 @@ -600,7 +636,7 @@ make[2]: Entering directory '/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg' rm -f *.o include/*.o zstd/lib/common/*.o zstd/lib/compress/*.o zstd/lib/decompress/*.o pgenlibr/src/*.a pgenlibr/src/*.o pgenlibr/src/Makevars pgenlibr/src/pgenlibr.so bin/plink2 bin/pgen_compress make[2]: Leaving directory '/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg' - cd build_dynamic && make -j42 "INSTALL=install --strip-program=true" SFX=-ssse3 + cd build_dynamic && make -j40 "INSTALL=install --strip-program=true" SFX=-ssse3 make[2]: Entering directory '/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg/build_dynamic' cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -DIGNORE_BUNDLED_LIBDEFLATE -mssse3 -O2 -std=gnu99 -DZSTD_MULTITHREAD -DIGNORE_BUNDLED_ZSTD -Wall -Wextra -Wshadow -Wformat-security ../include/SFMT.c -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -DIGNORE_BUNDLED_LIBDEFLATE -mssse3 -std=c++11 -O2 -DZSTD_MULTITHREAD -DIGNORE_BUNDLED_ZSTD -Wall -Wextra -Wshadow -Wformat-security -Wold-style-cast ../include/plink2_base.cc ../include/plink2_bits.cc ../include/pgenlib_misc.cc ../include/pgenlib_read.cc ../include/pgenlib_write.cc ../pgen_compress.cc -o pgen_compress-ssse3 @@ -669,7 +705,7 @@ make[2]: Entering directory '/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg' rm -f *.o include/*.o zstd/lib/common/*.o zstd/lib/compress/*.o zstd/lib/decompress/*.o pgenlibr/src/*.a pgenlibr/src/*.o pgenlibr/src/Makevars pgenlibr/src/pgenlibr.so bin/plink2 bin/pgen_compress make[2]: Leaving directory '/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg' - cd build_dynamic && make -j42 "INSTALL=install --strip-program=true" SFX=-sse3 + cd build_dynamic && make -j40 "INSTALL=install --strip-program=true" SFX=-sse3 make[2]: Entering directory '/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg/build_dynamic' cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -DIGNORE_BUNDLED_LIBDEFLATE -msse3 -O2 -std=gnu99 -DZSTD_MULTITHREAD -DIGNORE_BUNDLED_ZSTD -Wall -Wextra -Wshadow -Wformat-security ../include/SFMT.c -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -DIGNORE_BUNDLED_LIBDEFLATE -msse3 -std=c++11 -O2 -DZSTD_MULTITHREAD -DIGNORE_BUNDLED_ZSTD -Wall -Wextra -Wshadow -Wformat-security -Wold-style-cast ../include/plink2_base.cc ../include/plink2_bits.cc ../include/pgenlib_misc.cc ../include/pgenlib_read.cc ../include/pgenlib_write.cc ../pgen_compress.cc -o pgen_compress-sse3 @@ -736,13 +772,10 @@ g++ SFMT.o plink2_base.o plink2_bits.o pgenlib_misc.o pgenlib_read.o pgenlib_write.o plink2_bgzf.o plink2_bitmap.o plink2_fmath.o plink2_htable.o plink2_memory.o plink2_stats.o plink2_string.o plink2_text.o plink2_thread.o plink2_zstfile.o plink2.o plink2_adjust.o plink2_cmdline.o plink2_common.o plink2_compress_stream.o plink2_data.o plink2_decompress.o plink2_export.o plink2_export_legacy.o plink2_fasta.o plink2_filter.o plink2_glm.o plink2_glm_linear.o plink2_glm_logistic.o plink2_glm_shared.o plink2_help.o plink2_import.o plink2_import_legacy.o plink2_ld.o plink2_matrix.o plink2_matrix_calc.o plink2_merge.o plink2_misc.o plink2_psam.o plink2_pvar.o plink2_random.o plink2_set.o plink2_cpu.o -o plink2-sse3 -llapack -lblas -lm -lpthread -lz -lzstd -Wl,-z,relro -Wl,-z,now -ldeflate make[2]: Leaving directory '/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg/build_dynamic' make[2]: Entering directory '/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg' -make[2]: Warning: File 'Makefile.src' has modification time 34409357 s in the future rm -f *.o include/*.o zstd/lib/common/*.o zstd/lib/compress/*.o zstd/lib/decompress/*.o pgenlibr/src/*.a pgenlibr/src/*.o pgenlibr/src/Makevars pgenlibr/src/pgenlibr.so bin/plink2 bin/pgen_compress -make[2]: warning: Clock skew detected. Your build may be incomplete. make[2]: Leaving directory '/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg' - cd build_dynamic && make -j42 "INSTALL=install --strip-program=true" SFX=-sse2 + cd build_dynamic && make -j40 "INSTALL=install --strip-program=true" SFX=-sse2 make[2]: Entering directory '/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg/build_dynamic' -make[2]: Warning: File 'Makefile' has modification time 34409357 s in the future cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -DIGNORE_BUNDLED_LIBDEFLATE -msse2 -O2 -std=gnu99 -DZSTD_MULTITHREAD -DIGNORE_BUNDLED_ZSTD -Wall -Wextra -Wshadow -Wformat-security ../include/SFMT.c -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -DIGNORE_BUNDLED_LIBDEFLATE -msse2 -std=c++11 -O2 -DZSTD_MULTITHREAD -DIGNORE_BUNDLED_ZSTD -Wall -Wextra -Wshadow -Wformat-security -Wold-style-cast ../include/plink2_base.cc ../include/plink2_bits.cc ../include/pgenlib_misc.cc ../include/pgenlib_read.cc ../include/pgenlib_write.cc ../pgen_compress.cc -o pgen_compress-sse2 echo cc -O2 -std=gnu99 -DZSTD_MULTITHREAD -DIGNORE_BUNDLED_ZSTD -Wall -Wextra -Wshadow -Wformat-security -c @@ -806,7 +839,6 @@ | ^~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 ../plink2_cpu.cc -c g++ SFMT.o plink2_base.o plink2_bits.o pgenlib_misc.o pgenlib_read.o pgenlib_write.o plink2_bgzf.o plink2_bitmap.o plink2_fmath.o plink2_htable.o plink2_memory.o plink2_stats.o plink2_string.o plink2_text.o plink2_thread.o plink2_zstfile.o plink2.o plink2_adjust.o plink2_cmdline.o plink2_common.o plink2_compress_stream.o plink2_data.o plink2_decompress.o plink2_export.o plink2_export_legacy.o plink2_fasta.o plink2_filter.o plink2_glm.o plink2_glm_linear.o plink2_glm_logistic.o plink2_glm_shared.o plink2_help.o plink2_import.o plink2_import_legacy.o plink2_ld.o plink2_matrix.o plink2_matrix_calc.o plink2_merge.o plink2_misc.o plink2_psam.o plink2_pvar.o plink2_random.o plink2_set.o plink2_cpu.o -o plink2-sse2 -llapack -lblas -lm -lpthread -lz -lzstd -Wl,-z,relro -Wl,-z,now -ldeflate -make[2]: warning: Clock skew detected. Your build may be incomplete. make[2]: Leaving directory '/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg/build_dynamic' help2man --no-discard-stderr --name="whole genome SNP analysis" build_dynamic//pgen_compress-sse2 > pgen_compress.1 make[1]: Leaving directory '/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg' @@ -855,8 +887,8 @@ make[1]: Leaving directory '/build/reproducible-path/plink2-2.00~a6.9-250129+dfsg' dh_md5sums -O--sourcedirectory=build_dynamic/ dh_builddeb -O--sourcedirectory=build_dynamic/ -dpkg-deb: building package 'plink2-dbgsym' in '../plink2-dbgsym_2.00~a6.9-250129+dfsg-1_amd64.deb'. dpkg-deb: building package 'plink2' in '../plink2_2.00~a6.9-250129+dfsg-1_amd64.deb'. +dpkg-deb: building package 'plink2-dbgsym' in '../plink2-dbgsym_2.00~a6.9-250129+dfsg-1_amd64.deb'. dpkg-genbuildinfo --build=binary -O../plink2_2.00~a6.9-250129+dfsg-1_amd64.buildinfo dpkg-genchanges --build=binary -O../plink2_2.00~a6.9-250129+dfsg-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -864,25 +896,14 @@ 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/128957/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/128957/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 -Failed to get properties: Transport endpoint is not connected -Failed to get properties: Transport endpoint is not connected -W: Stray processes left from build: -* system-pbuilder-build-plink2_2.00\x7ea6.9\x2d250129\x2bdfsg\x2d1-2430434.slice - Slice /system/pbuilder/build/plink2_2.00~a6.9-250129+dfsg-1/2430434 - Loaded: loaded - Active: active since Sun 2026-10-04 09:42:54 -12; 20min ago - Invocation: abd0bca7f8d0466097a1c10084104d3e - Tasks: 0 - Memory: 500.6M (peak: 918.9M) - CPU: 16min 51.545s - CGroup: /system.slice/system-pbuilder.slice/system-pbuilder-build.slice/system-pbuilder-build-plink2_2.00\x7ea6.9\x2d250129\x2bdfsg\x2d1.slice/system-pbuilder-build-plink2_2.00\x7ea6.9\x2d250129\x2bdfsg\x2d1-2430434.slice - -Oct 04 09:42:54 ionos5-amd64 systemd[1]: Created slice system-pbuilder-build-plink2_2.00\x7ea6.9\x2d250129\x2bdfsg\x2d1-2430434.slice - Slice /system/pbuilder/build/plink2_2.00~a6.9-250129+dfsg-1/2430434. I: cleaning the build env -I: removing directory /srv/workspace/pbuilder/2430434 and its subdirectories -I: Current time: Sat Nov 6 16:26:54 -12 2027 -I: pbuilder-time-stamp: 1825561614 +I: removing directory /srv/workspace/pbuilder/128957 and its subdirectories +I: Current time: Tue Sep 2 06:09:30 +14 2025 +I: pbuilder-time-stamp: 1756742970