Diff of the two buildlogs: -- --- b1/build.log 2024-12-16 19:00:05.632502114 +0000 +++ b2/build.log 2024-12-16 19:01:49.743779416 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Mon Dec 16 06:58:27 -12 2024 -I: pbuilder-time-stamp: 1734375507 +I: Current time: Tue Dec 17 09:00:08 +14 2024 +I: pbuilder-time-stamp: 1734375608 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -32,52 +32,84 @@ dpkg-source: info: applying gcc-13-2.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/2697871/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/1150341/tmp/hooks/D01_modify_environment starting +debug: Running on codethink02-arm64. +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 Dec 16 19:00 /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/1150341/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/1150341/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='arm64' - DEBIAN_FRONTEND='noninteractive' + 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]="aarch64-unknown-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=arm64 + DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' - DISTRIBUTION='unstable' - HOME='/root' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=unstable + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - INVOCATION_ID='11efa3463661471aa0f42cf64429dc8f' - 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='2697871' - PS1='# ' - PS2='> ' + INVOCATION_ID=f42d8941e2794ab58ba44eda91effe88 + LANG=C + LANGUAGE=nl_BE:nl + LC_ALL=C + MACHTYPE=aarch64-unknown-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=1150341 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.nApZQ3VY/pbuilderrc_Ptnm --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.nApZQ3VY/b1 --logfile b1/build.log ivar_1.4.3+dfsg-2.dsc' - SUDO_GID='109' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://192.168.101.4:3128' + 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.nApZQ3VY/pbuilderrc_qRDg --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.nApZQ3VY/b2 --logfile b2/build.log ivar_1.4.3+dfsg-2.dsc' + SUDO_GID=109 + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://192.168.101.4:3128 I: uname -a - Linux codethink04-arm64 6.1.0-28-cloud-arm64 #1 SMP Debian 6.1.119-1 (2024-11-22) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-28-cloud-arm64 #1 SMP Debian 6.1.119-1 (2024-11-22) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/2697871/tmp/hooks/D02_print_environment finished +I: user script /srv/workspace/pbuilder/1150341/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -203,7 +235,7 @@ Get: 86 http://deb.debian.org/debian unstable/main arm64 libhts3t64 arm64 1.20+ds-2 [420 kB] Get: 87 http://deb.debian.org/debian unstable/main arm64 liblzma-dev arm64 5.6.3-1+b1 [312 kB] Get: 88 http://deb.debian.org/debian unstable/main arm64 libhts-dev arm64 1.20+ds-2 [1626 kB] -Fetched 36.7 MB in 0s (130 MB/s) +Fetched 36.7 MB in 0s (131 MB/s) debconf: delaying package configuration, since apt-utils is not installed 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 ... 20082 files and directories currently installed.) @@ -570,7 +602,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/ivar-1.4.3+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 > ../ivar_1.4.3+dfsg-2_source.changes +I: user script /srv/workspace/pbuilder/1150341/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/1150341/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/ivar-1.4.3+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 > ../ivar_1.4.3+dfsg-2_source.changes dpkg-buildpackage: info: source package ivar dpkg-buildpackage: info: source version 1.4.3+dfsg-2 dpkg-buildpackage: info: source distribution unstable @@ -662,48 +698,19 @@ make[3]: Entering directory '/build/reproducible-path/ivar-1.4.3+dfsg/src' g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -v -g -Wall -Wextra -Werror -c -o ivar.o ivar.cpp g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -v -g -Wall -Wextra -Werror -c -o call_consensus_pileup.o call_consensus_pileup.cpp -g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -v -g -Wall -Wextra -Werror -c -o alignment.o alignment.cpp -g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -v -g -Wall -Wextra -Werror -c -o suffix_tree.o suffix_tree.cpp -g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -v -g -Wall -Wextra -Werror -c -o trim_primer_quality.o trim_primer_quality.cpp -g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -v -g -Wall -Wextra -Werror -c -o remove_reads_from_amplicon.o remove_reads_from_amplicon.cpp -g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -v -g -Wall -Wextra -Werror -c -o call_variants.o call_variants.cpp -g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -v -g -Wall -Wextra -Werror -c -o primer_bed.o primer_bed.cpp -g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -v -g -Wall -Wextra -Werror -c -o allele_functions.o allele_functions.cpp Using built-in specs. -g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -v -g -Wall -Wextra -Werror -c -o get_masked_amplicons.o get_masked_amplicons.cpp COLLECT_GCC=g++ -Using built-in specs. OFFLOAD_TARGET_NAMES=nvptx-none OFFLOAD_TARGET_DEFAULT=1 Target: aarch64-linux-gnu -Using built-in specs. -Configured with: ../src/configure -v --with-pkgversion='Debian 14.2.0-9' --with-bugurl=file:///usr/share/doc/gcc-14/README.Bugs --enable-languages=c,ada,c++,go,d,fortran,objc,obj-c++,m2,rust --prefix=/usr --with-gcc-major-version-only --program-suffix=-14 --program-prefix=aarch64-linux-gnu- --enable-shared --enable-linker-build-id --libexecdir=/usr/libexec --without-included-gettexCOLLECT_GCC=g++ -OFFLOAD_TARGET_NAMES=nvptx-none -t --enable-threads=posix --libdir=/usr/lib --enable-nls --enable-bootstrap --enable-clocale=gnu --enable-libstdcxx-debug --enable-libstdcxx-time=yes --with-default-libstdcxx-abi=new --enable-libstdcxx-backtrace --enable-gnu-unique-object --disable-libquadmath --disable-libquadmath-support --enable-plugin --enable-default-pie --with-system-zlib --enable-libphobos-checking=release --with-target-system-zlib=auto --enable-objc-gc=auto --enable-multiarch --enable-fix-cortex-a53-843419 --disable-werror --enable-offload-targets=nvptx-none=/build/reproducible-path/gcc-14-14.2.0/debian/tmp-nvptx/usr --enable-offload-defaulted --without-cuda-driver --enable-checking=release --build=aarch64-linux-gnu --host=aarch64-linux-gnu --target=aarch64-linux-gnu --with-build-config=bootstrap-lto-lean --enable-link-serialization=2 -Thread model: posix -Supported LTO compression algorithms: zlib zstd -gcc version 14.2.0 (Debian 14.2.0-9) -Using built-in specs. -OFFLOAD_TARGET_DEFAULT=1 -COLLECT_GCC=g++ -OFFLOAD_TARGET_NAMES=nvptx-none -OFFLOAD_TARGET_DEFAULT=1 -Target: aarch64-linux-gnu -COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-mapConfigured with: ../src/configure -v --with-pkgversion='Debian 14.2.0-9' --with-bugurl=file:///usr/share/doc/gcc-14/README.Bugs =/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format---enable-languages=c,ada,c++,go,d,fortran,objc,obj-c++,m2,rust --prefix=/usr --with-gcc-major-version-only --program-suffix=-14 security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'ivar.o' '-shared-libgcc' '-mlittle-end--program-prefix=aarch64-linux-gnu- --enable-shared --enable-linker-build-id --libexecdir=/usr/libexec --without-included-gettexian' '-mabi=lp64' -t --enable-threads=posix --libdir=/usr/lib --enable-nls --enable-bootstrap --enable-clocale=gnu --enable-libstdcxx-debug --enable-libstdcxx-time=yes --with-default-libstdcxx-abi=new --enable-libstdcxx-backtrace --enable-gnu-unique-object --disable-libquadmath --disable-libquadmath-support --enable-plugin --enable-default-pie --with-system-zlib --enable-libphobos-checking=release --with-target-system-zlib=auto --enable-objc-gc=auto --enable-multiarch --enable-fix-cortex-a53-843419 --disable-werror --enable-offload-targets=nvptx-none=/build/reproducible-path/gcc-14-14.2.0/debian/tmp-nvptx/usr --enable-offload-defaulted --without-cuda-driver --enable-checking=release --build=aarch64-linux-gnu --host=aarch64-linux-gnu --target=aarch64-linux-gnu --with-build-config=bootstrap-lto-lean --enable-link-serialization=2 -Thread model: posix -Supported LTO compression algorithms: zlib zstd -gcc version 14.2.0 (Debian 14.2.0-9) - /usr/libexec/gcc/aarch64-linux-gnu/14/cc1plus -quiet -v -I . -I .. -imultiarch aarch64-linux-gnu -D_GNU_SOURCE -D HAVE_CONFIG_H -D _FORTIFY_SOURCE=2 ivar.cpp -quiet -dumpbase ivar.cpp -dumpbase-ext .cpp -mbranch-protection=standard -mlittle-endian -mabi=lp64 -g -g -O2 -Wdate-time -Wformat=1 -Werror=format-security -Wall -Wextra -Werror -version -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -fasynchronous-unwind-tables -o /tmp/ccJmfQZ5.s -Target: aarch64-linux-gnu -COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'alignment.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' - /usr/libexec/gcc/aarch64-linux-gnu/14/cc1plus -quiet -v -I . -I .. -imultiarch aarch64-linux-gnu -D_GNU_SOURCE -D HAVE_CONFIG_H -D _FORTIFY_SOURCE=2 alignment.cpp -quiet -dumpbase alignment.cpp -dumpbase-ext .cpp -mbranch-protection=standard -mlittle-endian -mabi=lp64 -g -g -O2 -Wdate-time -Wformat=1 -Werror=format-security -Wall -Wextra -Werror -version -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -fasynchronous-unwind-tables -o /tmp/cch4zR4r.s Configured with: ../src/configure -v --with-pkgversion='Debian 14.2.0-9' --with-bugurl=file:///usr/share/doc/gcc-14/README.Bugs --enable-languages=c,ada,c++,go,d,fortran,objc,obj-c++,m2,rust --prefix=/usr --with-gcc-major-version-only --program-suffix=-14 --program-prefix=aarch64-linux-gnu- --enable-shared --enable-linker-build-id --libexecdir=/usr/libexec --without-included-gettext --enable-threads=posix --libdir=/usr/lib --enable-nls --enable-bootstrap --enable-clocale=gnu --enable-libstdcxx-debug --enable-libstdcxx-time=yes --with-default-libstdcxx-abi=new --enable-libstdcxx-backtrace --enable-gnu-unique-object --disable-libquadmath --disable-libquadmath-support --enable-plugin --enable-default-pie --with-system-zlib --enable-libphobos-checking=release --with-target-system-zlib=auto --enable-objc-gc=auto --enable-multiarch --enable-fix-cortex-a53-843419 --disable-werror --enable-offload-targets=nvptx-none=/build/reproducible-path/gcc-14-14.2.0/debian/tmp-nvptx/usr --enable-offload-defaulted --without-cuda-driver --enable-checking=release --build=aarch64-linux-gnu --host=aarch64-linux-gnu --target=aarch64-linux-gnu --with-build-config=bootstrap-lto-lean --enable-link-serialization=2 Thread model: posix Supported LTO compression algorithms: zlib zstd gcc version 14.2.0 (Debian 14.2.0-9) -COLLECT_GCC=g++ +COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'ivar.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' + /usr/libexec/gcc/aarch64-linux-gnu/14/cc1plus -quiet -v -I . -I .. -imultiarch aarch64-linux-gnu -D_GNU_SOURCE -D HAVE_CONFIG_H -D _FORTIFY_SOURCE=2 ivar.cpp -quiet -dumpbase ivar.cpp -dumpbase-ext .cpp -mbranch-protection=standard -mlittle-endian -mabi=lp64 -g -g -O2 -Wdate-time -Wformat=1 -Werror=format-security -Wall -Wextra -Werror -version -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -fasynchronous-unwind-tables -o /tmp/ccW3bjj5.s Using built-in specs. +COLLECT_GCC=g++ OFFLOAD_TARGET_NAMES=nvptx-none OFFLOAD_TARGET_DEFAULT=1 Target: aarch64-linux-gnu @@ -712,10 +719,12 @@ Supported LTO compression algorithms: zlib zstd gcc version 14.2.0 (Debian 14.2.0-9) COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'call_consensus_pileup.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' - /usr/libexec/gcc/aarch64-linux-gnu/14/cc1plus -quiet -v -I . -I .. -imultiarch aarch64-linux-gnu -D_GNU_SOURCE -D HAVE_CONFIG_H -D _FORTIFY_SOURCE=2 call_consensus_pileup.cpp -quiet -dumpbase call_consensus_pileup.cpp -dumpbase-ext .cpp -mbranch-protection=standard -mlittle-endian -mabi=lp64 -g -g -O2 -Wdate-time -Wformat=1 -Werror=format-security -WallCOLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map -Wextra=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format- -Werrorsecurity' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'suffix_tree.o' '-shared-libgcc' '-mlit -versiontle-endian' '-mabi=lp64' - -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -fasynchronous-unwind-tables -o /tmp/cc18PXF7.s - /usr/libexec/gcc/aarch64-linux-gnu/14/cc1plus -quiet -v -I . -I .. -imultiarch aarch64-linux-gnu -D_GNU_SOURCE -D HAVE_CONFIG_H -D _FORTIFY_SOURCE=2 suffix_tree.cpp -quiet -dumpbase suffix_tree.cpp -dumpbase-ext .cpp -mbranch-protection=standard -mlittle-endian -mabi=lp64 -g -g -O2 -Wdate-time -Wformat=1 -Werror=format-security -Wall -Wextra -Werror -version -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -fasynchronous-unwind-tables -o /tmp/ccqMMgDN.s + /usr/libexec/gcc/aarch64-linux-gnu/14/cc1plus -quiet -v -I . -I .. -imultiarch aarch64-linux-gnu -D_GNU_SOURCE -D HAVE_CONFIG_H -D _FORTIFY_SOURCE=2 call_consensus_pileup.cpp -quiet -dumpbase call_consensus_pileup.cpp -dumpbase-ext .cpp -mbranch-protection=standard -mlittle-endian -mabi=lp64 -g -g -O2 -Wdate-time -Wformat=1 -Werror=format-security -Wall -Wextra -Werror -version -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -fasynchronous-unwind-tables -o /tmp/ccSEkwVL.s +g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -v -g -Wall -Wextra -Werror -c -o alignment.o alignment.cpp +g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -v -g -Wall -Wextra -Werror -c -o suffix_tree.o suffix_tree.cpp +g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -v -g -Wall -Wextra -Werror -c -o trim_primer_quality.o trim_primer_quality.cpp Using built-in specs. +g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -v -g -Wall -Wextra -Werror -c -o remove_reads_from_amplicon.o remove_reads_from_amplicon.cpp COLLECT_GCC=g++ OFFLOAD_TARGET_NAMES=nvptx-none OFFLOAD_TARGET_DEFAULT=1 @@ -724,8 +733,16 @@ Thread model: posix Supported LTO compression algorithms: zlib zstd gcc version 14.2.0 (Debian 14.2.0-9) -COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'trim_primer_quality.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' - /usr/libexec/gcc/aarch64-linux-gnu/14/cc1plus -quiet -v -I . -I .. -imultiarch aarch64-linux-gnu -D_GNU_SOURCE -D HAVE_CONFIG_H -D _FORTIFY_SOURCE=2 trim_primer_quality.cpp -quiet -dumpbase trim_primer_quality.cpp -dumpbase-ext .cpp -mbranch-protection=standard -mlittle-endian -mabi=lp64 -g -g -O2 -Wdate-time -Wformat=1 -Werror=format-security -Wall -Wextra -Werror -version -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -fasynchronous-unwind-tables -o /tmp/ccMWSWmR.s +g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -v -g -Wall -Wextra -Werror -c -o call_variants.o call_variants.cpp +COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'alignment.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' + /usr/libexec/gcc/aarch64-linux-gnu/14/cc1plus -quiet -v -I . -I .. -imultiarch aarch64-linux-gnu -D_GNU_SOURCE -D HAVE_CONFIG_H -D _FORTIFY_SOURCE=2 alignment.cpp -quiet -dumpbase alignment.cpp -dumpbase-ext .cpp -mbranch-protection=standard -mlittle-endian -mabi=lp64 -g -g -O2 -Wdate-time -Wformat=1 -Werror=format-security -Wall -Wextra -Werror -version -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -fasynchronous-unwind-tables -o /tmp/ccnlSqKq.s +Using built-in specs. +GNU C++17 (Debian 14.2.0-9) version 14.2.0 (aarch64-linux-gnu) + compiled by GNU C version 14.2.0, g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -v -g -Wall -Wextra -Werror -c -o primer_bed.o primer_bed.cpp +GMP version 6.3.0, MPFR version 4.2.1, MPC version 1.3.1, isl version isl-0.27-GMP + +GGC heuristics: --param ggc-min-expand=100 --param ggc-min-heapsize=131072 +Using built-in specs. Using built-in specs. COLLECT_GCC=g++ OFFLOAD_TARGET_NAMES=nvptx-none @@ -735,30 +752,68 @@ Thread model: posix Supported LTO compression algorithms: zlib zstd gcc version 14.2.0 (Debian 14.2.0-9) -COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'remove_reads_from_amplicon.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' - /usr/libexec/gcc/aarch64-linux-gnu/14/cc1plus -quiet -v -I . -I .. -imultiarch aarch64-linux-gnu -D_GNU_SOURCE -D HAVE_CONFIG_H -D _FORTIFY_SOURCE=2 remove_reads_from_amplicon.cpp -quiet -dumpbase remove_reads_from_amplicon.cpp -dumpbase-extUsing built-in specs. - .cpp -mbranch-protection=standard -mlittle-endian -mabi=lp64 -g -g -O2 -Wdate-time -Wformat=1 -Werror=format-security -Wall -Wextra -Werror -version -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -fasynchronous-unwind-tables -o /tmp/ccbBjNrL.s +ignoring duplicate directory "/usr/include/aarch64-linux-gnu/c++/14" +ignoring nonexistent directory "/usr/local/include/aarch64-linux-gnu" +ignoring nonexistent directory "/usr/lib/gcc/aarch64-linux-gnu/14/include-fixed/aarch64-linux-gnu" COLLECT_GCC=g++ +ignoring nonexistent directory "/usr/lib/gcc/aarch64-linux-gnu/14/include-fixed" OFFLOAD_TARGET_NAMES=nvptx-none +ignoring nonexistent directory "/usr/lib/gcc/aarch64-linux-gnu/14/../../../../aarch64-linux-gnu/include" OFFLOAD_TARGET_DEFAULT=1 Target: aarch64-linux-gnu -Configured with: ../src/configure -v --with-pkgversion='Debian 14.2.0-9' --with-bugurl=file:///usr/share/doc/gcc-14/README.Bugs --enable-languages=c,ada,c++,go,d,fortran,objc,obj-c++,m2,rust --prefix=/usr --with-gcc-major-version-only --program-suffix=-14 --program-prefix=aarch64-linux-gnu- --enable-shared --enable-linker-build-id --libexecdir=/usr/libexec --without-included-gettext --enable-threads=posix --libdir=/usr/lib --enable-nls --enable-bootstrap --enable-clocale=gnu --enable-libstdcxx-debug --enable-libstdcxx-time=yes --with-default-libstdcxx-abi=new --enable-libstdcxx-backtrace --enable-gnu-unique-object --disable-libquadmath --disable-libquadmath-support --enable-plugin --enable-default-pie --with-system-zlib --enable-libphobos-checking=release --with-target-system-zlib=auto --enable-objc-gc=auto --enable-multiarch --enable-fix-cortex-a53-843419 --disable-werror --enable-offload-targets=nvptx-none=/build/reproducible-path/gcc-14-14.2.0/debian/tmp-nvptx/usr --enable-offload-defaulted --without-cuda-driver --enable-checking=release --build=aarch64-linux-gnu --host=aarch64-linux-gnu --target=aarch64-linux-gnu --with-build-config=bootstrap-lto-lean --enable-link-serialization=2 +Configured with: ../src/configure -v --with-pkgversion='Debian 14.2.0-9' --with-bugurl=file:///usr/share/doc/gcc-14/README.Bugs --enable-languages=c,ada,c++,go,d,fortran,objc,obj-c++,m2,rust --prefix=/usr --with-gcc-major-version-only --program-suffix=-14 --program-prefix=aarch64-linux-gnu- --enable-shared --enable-linker-build-id --libexecdir=/usr/libexec --without-included-gettext --enable-threads=posix --libdir=/usr/lib --enable-nls --enable-bootstrap --enable-clocale=gnu --enable-libstdcxx-debug --enable-libstdcxx-time=yes --with-default-libstdcxx-abi=new --enable-libstdcxx-backtrace --enable-gnu-unique-object --disable-libquadmath --disable-libquadmath-support --enable-plugin --enable-default-pie --with-system-zlib --enable-libphobos-checking=release --with-target-system-zlib=auto --enable-objc-gc=auto --enable-multiarch --enable-fix-cortex-a53-843419 --disable-werror --enable-o#include "..." search starts here: +ffload-targets=nvptx-none=/build/reproducible-path/gcc-14-14.2.0/debian/tmp-nvptx/usr --enable-offload-defaulted --without-cuda-driver --enable-checking=release --build=aarch64-linux-gnu --host=aarch64-linux-gnu --target=aarch64-linux-gnu --with-build-conf#include <...> search starts here: +ig=bootstrap-lto-lean --enable-link-serialization=2 Thread model: posix -Supported LTO compression algorithms: zlib zstd +Supported LTO compression algorithms: zlib zstdCOLLECT_GCC=g++ + gcc version 14.2.0 (Debian 14.2.0-9) -COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-mapUsing built-in specs. -=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'call_variants.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' - /usr/libexec/gcc/aarch64-linux-gnu/14/cc1plus -quiet -v -I . -I .. -imultiarch aarch64-linux-gnu -D_GNU_SOURCE -D HAVE_CONFIG_H -D _FORTIFY_SOURCE=2 call_variants.cpp -quiet -dumpbase call_variants.cpp -dumpbase-ext .cpp -mbranch-protection=standard -mlittle-endian -mabi=lp64 -g -g -O2 -Wdate-time -Wformat=1 -Werror=format-security -Wall -Wextra -Werror -version -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -fasynchronous-unwind-tables -o /tmp/ccCFcKo4.s -COLLECT_GCC=g++ OFFLOAD_TARGET_NAMES=nvptx-none OFFLOAD_TARGET_DEFAULT=1 Target: aarch64-linux-gnu -Configured with: ../src/configure -v --with-pkgversion='Debian 14.2.0-9' --with-bugurl=file:///usr/share/doc/gcc-14/README.Bugs --enable-languages=c,ada,c++,go,d,fortran,objc,obj-c++,m2,rust --prefix=/usr --with-gcc-major-version-only --program-suffix=-14 --program-prefix=aarch64-linux-gnu- --enable-shared --enable-linker-build-id --libexecdir=/usr/libexec --without-included-gettext --enable-threads=posix --libdir=/usr/lib --enable-nls --enable-bootstrap --enable-clocale=gnu --enable-libstdcxx-debug --enable-libstdcxx-time=yes --with-default-libstdcxx-abi=new --enable-libstdcxx-backtrace --enable-gnu-unique-object --disable-libquadmath --disable-libquadmath-support --enable-plugin --enable-default-pie --with-system-zlib --enable-libphobos-checking=release --with-target-system-zlib=auto --enable-objc-gc=auto --enable-multiarch --enable-fix-cortex-a53-843419 --disable-werror --enable-offload-targets=nvptx-none=/build/reproducible-path/gcc-14-14.2.0/debian/tmp-nvptx/usr --enable-offload-defaulted --without-cuda-driver --enable-checking=release --build=aarch64-linux-gnu --host=aarch64-linux-gnu --target=aarch64-linux-gnu --with-build-config=bootstrap-lto-lean --enable-link-serialization=2 + . +Configured with: ../src/configure -v --with-pkgversion='Debian 14.2.0-9' --with-bugurl=file:///usr/share/doc/gcc-14/README.Bugs .. +--enable-languages=c,ada,c++,go,d,fortran,objc,obj-c++,m2,rust --prefix=/usr --with-gcc-major-version-only --program-suffix=-14 --program-prefix=aarch64-linux-gnu- --enable-shared --enable-linker-build-id --libexecdir=/usr/libexec --without-included-gettex /usr/include/c++/14 +t --enable-threads=posix --libdir=/usr/lib --enable-nls --enable-bootstrap --enable-clocale=gnu --enable-libstdcxx-debug --enable-libstdcxx-time=yes --with-default-libstdcxx-abi=new --enable-libstdcxx-backtrace --enable-gnu-unique-object --disable-libquadmath --disable-libquadmath-support --enable-plugin --enable-default-pie --with-system-zlib --enable-libphobos-checking=release -- /usr/include/aarch64-linux-gnu/c++/14 +with-target-system-zlib=auto --enable-objc-gc=auto --enable-multiarch --enable-fix-cortex-a53-843419 --disable-werror --enable-offload-targets=nvptx-none=/build/reproducible-path/gcc-14-14.2.0/debian/tmp-nvptx/usr --enable-offload-defaulted --without-cuda-driver --enable-checking=release --build=aarch64-linux-gnu --host=aarch64-linux-gnu --target=aarch64-linux-gnu --with-build-conf /usr/include/c++/14/backward +ig=bootstrap-lto-lean --enable-link-serialization=2 Thread model: posix -Supported LTO compression algorithms: zlib zstd + /usr/lib/gcc/aarch64-linux-gnu/14/include +Supported LTO compression algorithms: zlib zstd /usr/local/include + + /usr/include/aarch64-linux-gnu gcc version 14.2.0 (Debian 14.2.0-9) -COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'primer_bed.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' - /usr/libexec/gcc/aarch64-linux-gnu/14/cc1plus -quiet -v -I . -I .. -imultiarch aarch64-linux-gnu -D_GNU_SOURCE -D HAVE_CONFIG_H -D _FORTIFY_SOURCE=2 primer_bed.cpp -quiet -dumpbase primer_bed.cpp -dumpbase-ext .cpp -mbranch-protection=standard -mlittle-endian -mabi=lp64 -g -g -O2 -Wdate-time -Wformat=1 -Werror=format-security -Wall -Wextra -Werror -version -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -fasynchronous-unwind-tables -o /tmp/ccOxQJDL.s + /usr/include +End of search list. +COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'trim_primer_quality.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' + /usr/libexec/gcc/aarch64-linux-gnu/14/cc1plus -quiet -v -I . -I .. -imultiarch aarch64-linux-gnu -D_GNU_SOURCE -D HAVE_CONFIG_H -D _FORTIFY_SOURCE=2 trim_primer_quality.cpp -quiet -dumpbase trim_primer_quality.cpp -dumpbase-extCOLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map .cpp=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'call_variants.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' + -mbranch-protection=standard -mlittle-endian -mabi=lp64 -g -g -O2 -Wdate-time /usr/libexec/gcc/aarch64-linux-gnu/14/cc1plus -quiet -Wformat=1 -v -I -Werror=format-security . -I -Wall .. -imultiarch -Wextra aarch64-linux-gnu -D_GNU_SOURCE -D -Werror HAVE_CONFIG_H -D -version _FORTIFY_SOURCE=2 call_variants.cpp -quiet -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -dumpbase call_variants.cpp -dumpbase-ext -fstack-protector-strong .cpp -mbranch-protection=standard -mlittle-endian -fstack-clash-protection -mabi=lp64 -g -g -fasynchronous-unwind-tables -O2 -Wdate-time -Wformat=1 -o -Werror=format-security -Wall -Wextra /tmp/ccep353J.s -Werror -version -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -fasynchronous-unwind-tables + -o /tmp/ccu8Iq8G.s +COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'remove_reads_from_amplicon.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' + /usr/libexec/gcc/aarch64-linux-gnu/14/cc1plus -quiet -v -I . -I .. -imultiarch aarch64-linux-gnu -D_GNU_SOURCE -D HAVE_CONFIG_H -D _FORTIFY_SOURCE=2 remove_reads_from_amplicon.cpp -quiet -dumpbase remove_reads_from_amplicon.cpp -dumpbase-ext .cpp -mbranch-protection=standard -mlittle-endian -mabi=lp64 -g -g -O2 -Wdate-time -Wformat=1 -Werror=format-security -Wall -Wextra -Werror -version -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -fasynchronous-unwind-tables -o /tmp/cc3QxuYj.s +GNU C++17 (Debian 14.2.0-9) version 14.2.0 (aarch64-linux-gnu) + compiled by GNU C version 14.2.0, GMP version 6.3.0, MPFR version 4.2.1, MPC version 1.3.1, isl version isl-0.27-GMP + +GGC heuristics: --param ggc-min-expand=100 --param ggc-min-heapsize=131072 +Using built-in specs. +ignoring duplicate directory "/usr/include/aarch64-linux-gnu/c++/14" +ignoring nonexistent directory "/usr/local/include/aarch64-linux-gnu" +ignoring nonexistent directory "/usr/lib/gcc/aarch64-linux-gnu/14/include-fixed/aarch64-linux-gnu" +ignoring nonexistent directory "/usr/lib/gcc/aarch64-linux-gnu/14/include-fixed" +ignoring nonexistent directory "/usr/lib/gcc/aarch64-linux-gnu/14/../../../../aarch64-linux-gnu/include" +#include "..." search starts here: +#include <...> search starts here: + . + .. + /usr/include/c++/14 + /usr/include/aarch64-linux-gnu/c++/14 + /usr/include/c++/14/backward + /usr/lib/gcc/aarch64-linux-gnu/14/include + /usr/local/include + /usr/include/aarch64-linux-gnu + /usr/include +End of search list. +Using built-in specs. COLLECT_GCC=g++ OFFLOAD_TARGET_NAMES=nvptx-none OFFLOAD_TARGET_DEFAULT=1 @@ -767,9 +822,8 @@ Thread model: posix Supported LTO compression algorithms: zlib zstd gcc version 14.2.0 (Debian 14.2.0-9) -COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'allele_functions.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' - /usr/libexec/gcc/aarch64-linux-gnu/14/cc1plus -quiet -v -I . -I .. -imultiarch aarch64-linux-gnu -D_GNU_SOURCE -D HAVE_CONFIG_H -D _FORTIFY_SOURCE=2 allele_functions.cpp -quiet -dumpbase allele_functions.cpp -dumpbase-ext .cpp -mbranch-protection=standard -mlittle-endian -mabi=lp64 -g -g -O2 -Wdate-time -Wformat=1 -Werror=format-security -Wall -Wextra -Werror -version -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -fasynchronous-unwind-tables -o /tmp/ccq8sovy.s -Using built-in specs. +COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'suffix_tree.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' + /usr/libexec/gcc/aarch64-linux-gnu/14/cc1plus -quiet -v -I . -I .. -imultiarch aarch64-linux-gnu -D_GNU_SOURCE -D HAVE_CONFIG_H -D _FORTIFY_SOURCE=2 suffix_tree.cpp -quiet -dumpbase suffix_tree.cpp -dumpbase-ext .cpp -mbranch-protection=standard -mlittle-endian -mabi=lp64 -g -g -O2 -Wdate-time -Wformat=1 -Werror=format-security -Wall -Wextra -Werror -version -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -fasynchronous-unwind-tables -o /tmp/ccp2HL94.s COLLECT_GCC=g++ OFFLOAD_TARGET_NAMES=nvptx-none OFFLOAD_TARGET_DEFAULT=1 @@ -778,55 +832,58 @@ Thread model: posix Supported LTO compression algorithms: zlib zstd gcc version 14.2.0 (Debian 14.2.0-9) -COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'get_masked_amplicons.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' - /usr/libexec/gcc/aarch64-linux-gnu/14/cc1plus -quiet -v -I . -I .. -imultiarch aarch64-linux-gnu -D_GNU_SOURCE -D HAVE_CONFIG_H -D _FORTIFY_SOURCE=2 get_masked_amplicons.cpp -quiet -dumpbase get_masked_amplicons.cpp -dumpbase-ext .cpp -mbranch-protection=standard -mlittle-endian -mabi=lp64 -g -g -O2 -Wdate-time -Wformat=1 -Werror=format-security -Wall -Wextra -Werror -version -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -fasynchronous-unwind-tables -o /tmp/ccz21wGR.s -g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -v -g -Wall -Wextra -Werror -c -o get_common_variants.o get_common_variants.cpp +COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'primer_bed.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' + /usr/libexec/gcc/aarch64-linux-gnu/14/cc1plus -quiet -v -I . -I .. -imultiarch aarch64-linux-gnu -D_GNU_SOURCE -D HAVE_CONFIG_H -D _FORTIFY_SOURCE=2 primer_bed.cpp -quiet -dumpbase primer_bed.cpp -dumpbase-ext .cpp -mbranch-protection=standard -mlittle-endian -mabi=lp64 -g -g -O2 -Wdate-time -Wformat=1 -Werror=format-security -Wall -Wextra -Werror -version -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -fasynchronous-unwind-tables -o /tmp/ccD7fE0G.s +g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -v -g -Wall -Wextra -Werror -c -o allele_functions.o allele_functions.cpp GNU C++17 (Debian 14.2.0-9) version 14.2.0 (aarch64-linux-gnu) - compiled by GNU C version 14.2.0, GNU C++17 (Debian 14.2.0-9) version 14.2.0 (aarch64-linux-gnu) compiled by GNU C version 14.2.0, GMP version 6.3.0, MPFR version 4.2.1, MPC version 1.3.1, isl version isl-0.27-GMP -GMP version 6.3.0, MPFR version 4.2.1, MPC version 1.3.1, isl version isl-0.27-GMP - GGC heuristics: --param ggc-min-expand=100 --param ggc-min-heapsize=131072 -GGC heuristics: --param ggc-min-expand=100 --param ggc-min-heapsize=131072 -GNU C++17 (Debian 14.2.0-9) version 14.2.0 (aarch64-linux-gnu) - compiled by GNU C version 14.2.0, ignoring duplicate directory "/usr/include/aarch64-linux-gnu/c++/14" ignoring duplicate directory "/usr/include/aarch64-linux-gnu/c++/14" -GMP version 6.3.0, MPFR version 4.2.1, MPC version 1.3.1, isl version isl-0.27-GMP - ignoring nonexistent directory "/usr/local/include/aarch64-linux-gnu" -ignoring nonexistent directory "/usr/local/include/aarch64-linux-gnu" -ignoring nonexistent directory "/usr/lib/gcc/aarch64-linux-gnu/14/include-fixed/aarch64-linux-gnu" ignoring nonexistent directory "/usr/lib/gcc/aarch64-linux-gnu/14/include-fixed/aarch64-linux-gnu" ignoring nonexistent directory "/usr/lib/gcc/aarch64-linux-gnu/14/include-fixed" -ignoring nonexistent directory "/usr/lib/gcc/aarch64-linux-gnu/14/include-fixed" -ignoring nonexistent directory "/usr/lib/gcc/aarch64-linux-gnu/14/../../../../aarch64-linux-gnu/include" ignoring nonexistent directory "/usr/lib/gcc/aarch64-linux-gnu/14/../../../../aarch64-linux-gnu/include" -GGC heuristics: --param ggc-min-expand=100 --param ggc-min-heapsize=131072 -#include "..." search starts here: -#include <...> search starts here: #include "..." search starts here: #include <...> search starts here: . .. /usr/include/c++/14 - . - /usr/include/aarch64-linux-gnu/c++/14 - .. - /usr/include/c++/14/backward - /usr/include/c++/14 - /usr/lib/gcc/aarch64-linux-gnu/14/include /usr/include/aarch64-linux-gnu/c++/14 - /usr/local/include /usr/include/c++/14/backward - /usr/include/aarch64-linux-gnu /usr/lib/gcc/aarch64-linux-gnu/14/include - /usr/include /usr/local/include -End of search list. /usr/include/aarch64-linux-gnu /usr/include End of search list. +g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -v -g -Wall -Wextra -Werror -c -o get_masked_amplicons.o get_masked_amplicons.cpp +Using built-in specs. +g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -v -g -Wall -Wextra -Werror -c -o get_common_variants.o get_common_variants.cpp +COLLECT_GCC=g++ +OFFLOAD_TARGET_NAMES=nvptx-none +OFFLOAD_TARGET_DEFAULT=1 +Target: aarch64-linux-gnu +Configured with: ../src/configure -v --with-pkgversion='Debian 14.2.0-9' --with-bugurl=file:///usr/share/doc/gcc-14/README.Bugs --enable-languages=c,ada,c++,go,d,fortran,objc,obj-c++,m2,rust --prefix=/usr --with-gcc-major-version-only --program-suffix=-14 --program-prefix=aarch64-linux-gnu- --enable-shared --enable-linker-build-id --libexecdir=/usr/libexec --without-included-gettext --enable-threads=posix --libdir=/usr/lib --enable-nls --enable-bootstrap --enable-clocale=gnu --enable-libstdcxx-debug --enable-libstdcxx-time=yes --with-default-libstdcxx-abi=new --enable-libstdcxx-backtrace --enable-gnu-unique-object --disable-libquadmath --disable-libquadmath-support --enable-plugin --enable-default-pie --with-system-zlib --enable-libphobos-checking=release --with-target-system-zlib=auto --enable-objc-gc=auto --enable-multiarch --enable-fix-cortex-a53-843419 --disable-werror --enable-offload-targets=nvptx-none=/build/reproducible-path/gcc-14-14.2.0/debian/tmp-nvptx/usr --enable-offload-defaulted --without-cuda-driver --enable-checking=release --build=aarch64-linux-gnu --host=aarch64-linux-gnu --target=aarch64-linux-gnu --with-build-config=bootstrap-lto-lean --enable-link-serialization=2 +Thread model: posix +Supported LTO compression algorithms: zlib zstd +gcc version 14.2.0 (Debian 14.2.0-9) +COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'allele_functions.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' + /usr/libexec/gcc/aarch64-linux-gnu/14/cc1plus -quiet -v -I . -I .. -imultiarch aarch64-linux-gnu -D_GNU_SOURCE -D HAVE_CONFIG_H -D _FORTIFY_SOURCE=2 allele_functions.cpp -quiet -dumpbase allele_functions.cpp -dumpbase-ext .cpp -mbranch-protection=standard -mlittle-endian -mabi=lp64 -g -g -O2 -Wdate-time -Wformat=1 -Werror=format-security -Wall -Wextra -Werror -version -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -fasynchronous-unwind-tables -o /tmp/ccO8MikL.s +Using built-in specs. +COLLECT_GCC=g++ +OFFLOAD_TARGET_NAMES=nvptx-none +OFFLOAD_TARGET_DEFAULT=1 +Target: aarch64-linux-gnu +Configured with: ../src/configure -v --with-pkgversion='Debian 14.2.0-9' --with-bugurl=file:///usr/share/doc/gcc-14/README.Bugs --enable-languages=c,ada,c++,go,d,fortran,objc,obj-c++,m2,rust --prefix=/usr --with-gcc-major-version-only --program-suffix=-14 --program-prefix=aarch64-linux-gnu- --enable-shared --enable-linker-build-id --libexecdir=/usr/libexec --without-included-gettext --enable-threads=posix --libdir=/usr/lib --enable-nls --enable-bootstrap --enable-clocale=gnu --enable-libstdcxx-debug --enable-libstdcxx-time=yes --with-default-libstdcxx-abi=new --enable-libstdcxx-backtrace --enable-gnu-unique-object --disable-libquadmath --disable-libquadmath-support --enable-plugin --enable-default-pie --with-system-zlib --enable-libphobos-checking=release --with-target-system-zlib=auto --enable-objc-gc=auto --enable-multiarch --enable-fix-cortex-a53-843419 --disable-werror --enable-offload-targets=nvptx-none=/build/reproducible-path/gcc-14-14.2.0/debian/tmp-nvptx/usr --enable-offload-defaulted --without-cuda-driver --enable-checking=release --build=aarch64-linux-gnu --host=aarch64-linux-gnu --target=aarch64-linux-gnu --with-build-config=bootstrap-lto-lean --enable-link-serialization=2 +Thread model: posix +Supported LTO compression algorithms: zlib zstd +gcc version 14.2.0 (Debian 14.2.0-9) +COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'get_masked_amplicons.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' + /usr/libexec/gcc/aarch64-linux-gnu/14/cc1plus -quiet -v -I . -I .. -imultiarch aarch64-linux-gnu -D_GNU_SOURCE -D HAVE_CONFIG_H -D _FORTIFY_SOURCE=2 get_masked_amplicons.cpp -quiet -dumpbase get_masked_amplicons.cpp -dumpbase-ext .cpp -mbranch-protection=standard -mlittle-endian -mabi=lp64 -g -g -O2 -Wdate-time -Wformat=1 -Werror=format-security -Wall -Wextra -Werror -version -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -fasynchronous-unwind-tables -o /tmp/cctZvuzP.s +GNU C++17 (Debian 14.2.0-9) version 14.2.0 (aarch64-linux-gnu) + compiled by GNU C version 14.2.0, GMP version 6.3.0, MPFR version 4.2.1, MPC version 1.3.1, isl version isl-0.27-GMP + +GGC heuristics: --param ggc-min-expand=100 --param ggc-min-heapsize=131072 GNU C++17 (Debian 14.2.0-9) version 14.2.0 (aarch64-linux-gnu) compiled by GNU C version 14.2.0, GMP version 6.3.0, MPFR version 4.2.1, MPC version 1.3.1, isl version isl-0.27-GMP @@ -887,41 +944,16 @@ /usr/include End of search list. GNU C++17 (Debian 14.2.0-9) version 14.2.0 (aarch64-linux-gnu) - compiled by GNU C version 14.2.0, GNU C++17 (Debian 14.2.0-9) version 14.2.0 (aarch64-linux-gnu) - compiled by GNU C version 14.2.0, GMP version 6.3.0, MPFR version 4.2.1, MPC version 1.3.1, isl version isl-0.27-GMP - -GMP version 6.3.0, MPFR version 4.2.1, MPC version 1.3.1, isl version isl-0.27-GMP - -GGC heuristics: --param ggc-min-expand=100 --param ggc-min-heapsize=131072 -GGC heuristics: --param ggc-min-expand=100 --param ggc-min-heapsize=131072 -GNU C++17 (Debian 14.2.0-9) version 14.2.0 (aarch64-linux-gnu) compiled by GNU C version 14.2.0, GMP version 6.3.0, MPFR version 4.2.1, MPC version 1.3.1, isl version isl-0.27-GMP GGC heuristics: --param ggc-min-expand=100 --param ggc-min-heapsize=131072 ignoring duplicate directory "/usr/include/aarch64-linux-gnu/c++/14" ignoring nonexistent directory "/usr/local/include/aarch64-linux-gnu" -ignoring duplicate directory "/usr/include/aarch64-linux-gnu/c++/14" ignoring nonexistent directory "/usr/lib/gcc/aarch64-linux-gnu/14/include-fixed/aarch64-linux-gnu" ignoring nonexistent directory "/usr/lib/gcc/aarch64-linux-gnu/14/include-fixed" -ignoring nonexistent directory "/usr/local/include/aarch64-linux-gnu" -ignoring nonexistent directory "/usr/lib/gcc/aarch64-linux-gnu/14/../../../../aarch64-linux-gnu/include" -ignoring nonexistent directory "/usr/lib/gcc/aarch64-linux-gnu/14/include-fixed/aarch64-linux-gnu" -ignoring nonexistent directory "/usr/lib/gcc/aarch64-linux-gnu/14/include-fixed" -#include "..." search starts here: -#include <...> search starts here: ignoring nonexistent directory "/usr/lib/gcc/aarch64-linux-gnu/14/../../../../aarch64-linux-gnu/include" - . - .. - /usr/include/c++/14 - /usr/include/aarch64-linux-gnu/c++/14 #include "..." search starts here: - /usr/include/c++/14/backward #include <...> search starts here: - /usr/lib/gcc/aarch64-linux-gnu/14/include - /usr/local/include - /usr/include/aarch64-linux-gnu - /usr/include -End of search list. . .. /usr/include/c++/14 @@ -932,6 +964,11 @@ /usr/include/aarch64-linux-gnu /usr/include End of search list. +Compiler executable checksum: 33a8fdae80d79d987066ae86d327e99c +GNU C++17 (Debian 14.2.0-9) version 14.2.0 (aarch64-linux-gnu) + compiled by GNU C version 14.2.0, GMP version 6.3.0, MPFR version 4.2.1, MPC version 1.3.1, isl version isl-0.27-GMP + +GGC heuristics: --param ggc-min-expand=100 --param ggc-min-heapsize=131072 ignoring duplicate directory "/usr/include/aarch64-linux-gnu/c++/14" ignoring nonexistent directory "/usr/local/include/aarch64-linux-gnu" ignoring nonexistent directory "/usr/lib/gcc/aarch64-linux-gnu/14/include-fixed/aarch64-linux-gnu" @@ -949,6 +986,19 @@ /usr/include/aarch64-linux-gnu /usr/include End of search list. +Using built-in specs. +COLLECT_GCC=g++ +OFFLOAD_TARGET_NAMES=nvptx-none +OFFLOAD_TARGET_DEFAULT=1 +Target: aarch64-linux-gnu +Configured with: ../src/configure -v --with-pkgversion='Debian 14.2.0-9' --with-bugurl=file:///usr/share/doc/gcc-14/README.Bugs --enable-languages=c,ada,c++,go,d,fortran,objc,obj-c++,m2,rust --prefix=/usr --with-gcc-major-version-only --program-suffix=-14 --program-prefix=aarch64-linux-gnu- --enable-shared --enable-linker-build-id --libexecdir=/usr/libexec --without-included-gettext --enable-threads=posix --libdir=/usr/lib --enable-nls --enable-bootstrap --enable-clocale=gnu --enable-libstdcxx-debug --enable-libstdcxx-time=yes --with-default-libstdcxx-abi=new --enable-libstdcxx-backtrace --enable-gnu-unique-object --disable-libquadmath --disable-libquadmath-support --enable-plugin --enable-default-pie --with-system-zlib --enable-libphobos-checking=release --with-target-system-zlib=auto --enable-objc-gc=auto --enable-multiarch --enable-fix-cortex-a53-843419 --disable-werror --enable-offload-targets=nvptx-none=/build/reproducible-path/gcc-14-14.2.0/debian/tmp-nvptx/usr --enable-offload-defaulted --without-cuda-driver --enable-checking=release --build=aarch64-linux-gnu --host=aarch64-linux-gnu --target=aarch64-linux-gnu --with-build-config=bootstrap-lto-lean --enable-link-serialization=2 +Thread model: posix +Supported LTO compression algorithms: zlib zstd +gcc version 14.2.0 (Debian 14.2.0-9) +COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'get_common_variants.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' + /usr/libexec/gcc/aarch64-linux-gnu/14/cc1plus -quiet -v -I . -I .. -imultiarch aarch64-linux-gnu -D_GNU_SOURCE -D HAVE_CONFIG_H -D _FORTIFY_SOURCE=2 get_common_variants.cpp -quiet -dumpbase get_common_variants.cpp -dumpbase-ext .cpp -mbranch-protection=standard -mlittle-endian -mabi=lp64 -g -g -O2 -Wdate-time -Wformat=1 -Werror=format-security -Wall -Wextra -Werror -version -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -fasynchronous-unwind-tables -o /tmp/ccR0YGDQ.s +Compiler executable checksum: 33a8fdae80d79d987066ae86d327e99c +g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -v -g -Wall -Wextra -Werror -c -o parse_gff.o parse_gff.cpp GNU C++17 (Debian 14.2.0-9) version 14.2.0 (aarch64-linux-gnu) compiled by GNU C version 14.2.0, GMP version 6.3.0, MPFR version 4.2.1, MPC version 1.3.1, isl version isl-0.27-GMP @@ -970,6 +1020,7 @@ /usr/include/aarch64-linux-gnu /usr/include End of search list. +Compiler executable checksum: 33a8fdae80d79d987066ae86d327e99c GNU C++17 (Debian 14.2.0-9) version 14.2.0 (aarch64-linux-gnu) compiled by GNU C version 14.2.0, GMP version 6.3.0, MPFR version 4.2.1, MPC version 1.3.1, isl version isl-0.27-GMP @@ -991,8 +1042,8 @@ /usr/include/aarch64-linux-gnu /usr/include End of search list. +Compiler executable checksum: 33a8fdae80d79d987066ae86d327e99c Using built-in specs. -g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -v -g -Wall -Wextra -Werror -c -o parse_gff.o parse_gff.cpp COLLECT_GCC=g++ OFFLOAD_TARGET_NAMES=nvptx-none OFFLOAD_TARGET_DEFAULT=1 @@ -1001,8 +1052,9 @@ Thread model: posix Supported LTO compression algorithms: zlib zstd gcc version 14.2.0 (Debian 14.2.0-9) -COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'get_common_variants.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' - /usr/libexec/gcc/aarch64-linux-gnu/14/cc1plus -quiet -v -I . -I .. -imultiarch aarch64-linux-gnu -D_GNU_SOURCE -D HAVE_CONFIG_H -D _FORTIFY_SOURCE=2 get_common_variants.cpp -quiet -dumpbase get_common_variants.cpp -dumpbase-ext .cpp -mbranch-protection=standard -mlittle-endian -mabi=lp64 -g -g -O2 -Wdate-time -Wformat=1 -Werror=format-security -Wall -Wextra -Werror -version -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -fasynchronous-unwind-tables -o /tmp/ccltfZhK.s +COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'parse_gff.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' + /usr/libexec/gcc/aarch64-linux-gnu/14/cc1plus -quiet -v -I . -I .. -imultiarch aarch64-linux-gnu -D_GNU_SOURCE -D HAVE_CONFIG_H -D _FORTIFY_SOURCE=2 parse_gff.cpp -quiet -dumpbase parse_gff.cpp -dumpbase-ext .cpp -mbranch-protection=standard -mlittle-endian -mabi=lp64 -g -g -O2 -Wdate-time -Wformat=1 -Werror=format-security -Wall -Wextra -Werror -version -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -fasynchronous-unwind-tables -o /tmp/ccRDer2Y.s +Compiler executable checksum: 33a8fdae80d79d987066ae86d327e99c GNU C++17 (Debian 14.2.0-9) version 14.2.0 (aarch64-linux-gnu) compiled by GNU C version 14.2.0, GMP version 6.3.0, MPFR version 4.2.1, MPC version 1.3.1, isl version isl-0.27-GMP @@ -1024,28 +1076,9 @@ /usr/include/aarch64-linux-gnu /usr/include End of search list. -Compiler executable checksum: 33a8fdae80d79d987066ae86d327e99cCompiler executable checksum: -33a8fdae80d79d987066ae86d327e99c -Compiler executable checksum: 33a8fdae80d79d987066ae86d327e99c -Compiler executable checksum: 33a8fdae80d79d987066ae86d327e99c Compiler executable checksum: 33a8fdae80d79d987066ae86d327e99c Compiler executable checksum: 33a8fdae80d79d987066ae86d327e99c Compiler executable checksum: 33a8fdae80d79d987066ae86d327e99c -Compiler executable checksum: 33a8fdae80d79d987066ae86d327e99c -Using built-in specs. -COLLECT_GCC=g++ -OFFLOAD_TARGET_NAMES=nvptx-none -OFFLOAD_TARGET_DEFAULT=1 -Target: aarch64-linux-gnu -Configured with: ../src/configure -v --with-pkgversion='Debian 14.2.0-9' --with-bugurl=file:///usr/share/doc/gcc-14/README.Bugs --enable-languages=c,ada,c++,go,d,fortran,objc,obj-c++,m2,rust --prefix=/usr --with-gcc-major-version-only --program-suffix=-14 --program-prefix=aarch64-linux-gnu- --enable-shared --enable-linker-build-id --libexecdir=/usr/libexec --without-included-gettext --enable-threads=posix --libdir=/usr/lib --enable-nls --enable-bootstrap --enable-clocale=gnu --enable-libstdcxx-debug --enable-libstdcxx-time=yes --with-default-libstdcxx-abi=new --enable-libstdcxx-backtrace --enable-gnu-unique-object --disable-libquadmath --disable-libquadmath-support --enable-plugin --enable-default-pie --with-system-zlib --enable-libphobos-checking=release --with-target-system-zlib=auto --enable-objc-gc=auto --enable-multiarch --enable-fix-cortex-a53-843419 --disable-werror --enable-offload-targets=nvptx-none=/build/reproducible-path/gcc-14-14.2.0/debian/tmp-nvptx/usr --enable-offload-defaulted --without-cuda-driver --enable-checking=release --build=aarch64-linux-gnu --host=aarch64-linux-gnu --target=aarch64-linux-gnu --with-build-config=bootstrap-lto-lean --enable-link-serialization=2 -Thread model: posix -Supported LTO compression algorithms: zlib zstd -gcc version 14.2.0 (Debian 14.2.0-9) -Compiler executable checksum: 33a8fdae80d79d987066ae86d327e99c -COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'parse_gff.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' - /usr/libexec/gcc/aarch64-linux-gnu/14/cc1plus -quiet -v -I . -I .. -imultiarch aarch64-linux-gnu -D_GNU_SOURCE -D HAVE_CONFIG_H -D _FORTIFY_SOURCE=2 parse_gff.cpp -quiet -dumpbase parse_gff.cpp -dumpbase-ext .cpp -mbranch-protection=standard -mlittle-endian -mabi=lp64 -g -g -O2 -Wdate-time -Wformat=1 -Werror=format-security -Wall -Wextra -Werror -version -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -fasynchronous-unwind-tables -o /tmp/ccxse0gr.s -Compiler executable checksum: 33a8fdae80d79d987066ae86d327e99c -Compiler executable checksum: 33a8fdae80d79d987066ae86d327e99c GNU C++17 (Debian 14.2.0-9) version 14.2.0 (aarch64-linux-gnu) compiled by GNU C version 14.2.0, GMP version 6.3.0, MPFR version 4.2.1, MPC version 1.3.1, isl version isl-0.27-GMP @@ -1068,8 +1101,11 @@ /usr/include End of search list. Compiler executable checksum: 33a8fdae80d79d987066ae86d327e99c +Compiler executable checksum: 33a8fdae80d79d987066ae86d327e99c +Compiler executable checksum: 33a8fdae80d79d987066ae86d327e99c +Compiler executable checksum: 33a8fdae80d79d987066ae86d327e99c COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'alignment.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' - as -v -I . -I .. --gdwarf-5 -EL -mabi=lp64 -o alignment.o /tmp/cch4zR4r.s + as -v -I . -I .. --gdwarf-5 -EL -mabi=lp64 -o alignment.o /tmp/ccnlSqKq.s GNU assembler version 2.43.50 (aarch64-linux-gnu) using BFD version (GNU Binutils for Debian) 2.43.50.20241215 MAKEFLAGS=w -j12 COMPILER_PATH=/usr/libexec/gcc/aarch64-linux-gnu/14/:/usr/libexec/gcc/aarch64-linux-gnu/14/:/usr/libexec/gcc/aarch64-linux-gnu/:/usr/lib/gcc/aarch64-linux-gnu/14/:/usr/lib/gcc/aarch64-linux-gnu/ @@ -1086,7 +1122,7 @@ Supported LTO compression algorithms: zlib zstd gcc version 14.2.0 (Debian 14.2.0-9) COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'ref_seq.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' - /usr/libexec/gcc/aarch64-linux-gnu/14/cc1plus -quiet -v -I . -I .. -imultiarch aarch64-linux-gnu -D_GNU_SOURCE -D HAVE_CONFIG_H -D _FORTIFY_SOURCE=2 ref_seq.cpp -quiet -dumpbase ref_seq.cpp -dumpbase-ext .cpp -mbranch-protection=standard -mlittle-endian -mabi=lp64 -g -g -O2 -Wdate-time -Wformat=1 -Werror=format-security -Wall -Wextra -Werror -version -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -fasynchronous-unwind-tables -o /tmp/ccucVPIG.s + /usr/libexec/gcc/aarch64-linux-gnu/14/cc1plus -quiet -v -I . -I .. -imultiarch aarch64-linux-gnu -D_GNU_SOURCE -D HAVE_CONFIG_H -D _FORTIFY_SOURCE=2 ref_seq.cpp -quiet -dumpbase ref_seq.cpp -dumpbase-ext .cpp -mbranch-protection=standard -mlittle-endian -mabi=lp64 -g -g -O2 -Wdate-time -Wformat=1 -Werror=format-security -Wall -Wextra -Werror -version -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -fasynchronous-unwind-tables -o /tmp/ccYuJAiq.s GNU C++17 (Debian 14.2.0-9) version 14.2.0 (aarch64-linux-gnu) compiled by GNU C version 14.2.0, GMP version 6.3.0, MPFR version 4.2.1, MPC version 1.3.1, isl version isl-0.27-GMP @@ -1109,14 +1145,21 @@ /usr/include End of search list. Compiler executable checksum: 33a8fdae80d79d987066ae86d327e99c -COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'get_masked_amplicons.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' - as -v -I . -I .. --gdwarf-5 -EL -mabi=lp64 -o get_masked_amplicons.o /tmp/ccz21wGR.s +COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'allele_functions.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' + as -v -I . -I .. --gdwarf-5 -EL -mabi=lp64 -o allele_functions.o /tmp/ccO8MikL.s +GNU assembler version 2.43.50 (aarch64-linux-gnu) using BFD version (GNU Binutils for Debian) 2.43.50.20241215 +COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'remove_reads_from_amplicon.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' + as -v -I . -I .. --gdwarf-5 -EL -mabi=lp64 -o remove_reads_from_amplicon.o /tmp/cc3QxuYj.s GNU assembler version 2.43.50 (aarch64-linux-gnu) using BFD version (GNU Binutils for Debian) 2.43.50.20241215 MAKEFLAGS=w -j12 COMPILER_PATH=/usr/libexec/gcc/aarch64-linux-gnu/14/:/usr/libexec/gcc/aarch64-linux-gnu/14/:/usr/libexec/gcc/aarch64-linux-gnu/:/usr/lib/gcc/aarch64-linux-gnu/14/:/usr/lib/gcc/aarch64-linux-gnu/ LIBRARY_PATH=/usr/lib/gcc/aarch64-linux-gnu/14/:/usr/lib/gcc/aarch64-linux-gnu/14/../../../aarch64-linux-gnu/:/usr/lib/gcc/aarch64-linux-gnu/14/../../../../lib/:/lib/aarch64-linux-gnu/:/lib/../lib/:/usr/lib/aarch64-linux-gnu/:/usr/lib/../lib/:/usr/lib/gcc/aarch64-linux-gnu/14/../../../:/lib/:/usr/lib/ -COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'get_masked_amplicons.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' '-dumpdir' 'get_masked_amplicons.' +COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'allele_functions.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' '-dumpdir' 'allele_functions.' g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -v -g -Wall -Wextra -Werror -c -o interval_tree.o interval_tree.cpp +MAKEFLAGS=w -j12 +COMPILER_PATH=/usr/libexec/gcc/aarch64-linux-gnu/14/:/usr/libexec/gcc/aarch64-linux-gnu/14/:/usr/libexec/gcc/aarch64-linux-gnu/:/usr/lib/gcc/aarch64-linux-gnu/14/:/usr/lib/gcc/aarch64-linux-gnu/ +LIBRARY_PATH=/usr/lib/gcc/aarch64-linux-gnu/14/:/usr/lib/gcc/aarch64-linux-gnu/14/../../../aarch64-linux-gnu/:/usr/lib/gcc/aarch64-linux-gnu/14/../../../../lib/:/lib/aarch64-linux-gnu/:/lib/../lib/:/usr/lib/aarch64-linux-gnu/:/usr/lib/../lib/:/usr/lib/gcc/aarch64-linux-gnu/14/../../../:/lib/:/usr/lib/ +COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'remove_reads_from_amplicon.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' '-dumpdir' 'remove_reads_from_amplicon.' Using built-in specs. COLLECT_GCC=g++ OFFLOAD_TARGET_NAMES=nvptx-none @@ -1127,7 +1170,7 @@ Supported LTO compression algorithms: zlib zstd gcc version 14.2.0 (Debian 14.2.0-9) COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' 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MAKEFLAGS=w -j12 COMPILER_PATH=/usr/libexec/gcc/aarch64-linux-gnu/14/:/usr/libexec/gcc/aarch64-linux-gnu/14/:/usr/libexec/gcc/aarch64-linux-gnu/:/usr/lib/gcc/aarch64-linux-gnu/14/:/usr/lib/gcc/aarch64-linux-gnu/ LIBRARY_PATH=/usr/lib/gcc/aarch64-linux-gnu/14/:/usr/lib/gcc/aarch64-linux-gnu/14/../../../aarch64-linux-gnu/:/usr/lib/gcc/aarch64-linux-gnu/14/../../../../lib/:/lib/aarch64-linux-gnu/:/lib/../lib/:/usr/lib/aarch64-linux-gnu/:/usr/lib/../lib/:/usr/lib/gcc/aarch64-linux-gnu/14/../../../:/lib/:/usr/lib/ -COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' 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'-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'ref_seq.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' '-dumpdir' 'ref_seq.' -COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' 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MAKEFLAGS=w -j12 COMPILER_PATH=/usr/libexec/gcc/aarch64-linux-gnu/14/:/usr/libexec/gcc/aarch64-linux-gnu/14/:/usr/libexec/gcc/aarch64-linux-gnu/:/usr/lib/gcc/aarch64-linux-gnu/14/:/usr/lib/gcc/aarch64-linux-gnu/ LIBRARY_PATH=/usr/lib/gcc/aarch64-linux-gnu/14/:/usr/lib/gcc/aarch64-linux-gnu/14/../../../aarch64-linux-gnu/:/usr/lib/gcc/aarch64-linux-gnu/14/../../../../lib/:/lib/aarch64-linux-gnu/:/lib/../lib/:/usr/lib/aarch64-linux-gnu/:/usr/lib/../lib/:/usr/lib/gcc/aarch64-linux-gnu/14/../../../:/lib/:/usr/lib/ -COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' 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'-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'trim_primer_quality.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' '-dumpdir' 'trim_primer_quality.' +COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'call_consensus_pileup.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' '-dumpdir' 'call_consensus_pileup.' COLLECT_GCC_OPTIONS='-D' 'HAVE_CONFIG_H' '-I' '.' '-I' '..' '-Wdate-time' '-D' '_FORTIFY_SOURCE=2' '-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-c' '-o' 'parse_gff.o' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' - as -v -I . -I .. --gdwarf-5 -EL -mabi=lp64 -o parse_gff.o /tmp/ccxse0gr.s + as -v -I . -I .. --gdwarf-5 -EL -mabi=lp64 -o parse_gff.o /tmp/ccRDer2Y.s GNU assembler version 2.43.50 (aarch64-linux-gnu) using BFD version (GNU Binutils for Debian) 2.43.50.20241215 MAKEFLAGS=w -j12 COMPILER_PATH=/usr/libexec/gcc/aarch64-linux-gnu/14/:/usr/libexec/gcc/aarch64-linux-gnu/14/:/usr/libexec/gcc/aarch64-linux-gnu/:/usr/lib/gcc/aarch64-linux-gnu/14/:/usr/lib/gcc/aarch64-linux-gnu/ @@ -1249,7 +1285,7 @@ COMPILER_PATH=/usr/libexec/gcc/aarch64-linux-gnu/14/:/usr/libexec/gcc/aarch64-linux-gnu/14/:/usr/libexec/gcc/aarch64-linux-gnu/:/usr/lib/gcc/aarch64-linux-gnu/14/:/usr/lib/gcc/aarch64-linux-gnu/ LIBRARY_PATH=/usr/lib/gcc/aarch64-linux-gnu/14/:/usr/lib/gcc/aarch64-linux-gnu/14/../../../aarch64-linux-gnu/:/usr/lib/gcc/aarch64-linux-gnu/14/../../../../lib/:/lib/aarch64-linux-gnu/:/lib/../lib/:/usr/lib/aarch64-linux-gnu/:/usr/lib/../lib/:/usr/lib/gcc/aarch64-linux-gnu/14/../../../:/lib/:/usr/lib/ COLLECT_GCC_OPTIONS='-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-o' 'ivar' '-foffload-options=-l_GCC_m' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' '-dumpdir' 'ivar.' - /usr/libexec/gcc/aarch64-linux-gnu/14/collect2 -plugin /usr/libexec/gcc/aarch64-linux-gnu/14/liblto_plugin.so -plugin-opt=/usr/libexec/gcc/aarch64-linux-gnu/14/lto-wrapper -plugin-opt=-fresolution=/tmp/ccRIS5zh.res -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc -plugin-opt=-pass-through=-lc -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc --build-id --eh-frame-hdr --hash-style=gnu --as-needed -dynamic-linker /lib/ld-linux-aarch64.so.1 -X -EL -maarch64linux --fix-cortex-a53-843419 -pie -o ivar /usr/lib/gcc/aarch64-linux-gnu/14/../../../aarch64-linux-gnu/Scrt1.o /usr/lib/gcc/aarch64-linux-gnu/14/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/14/crtbeginS.o -L/usr/lib/gcc/aarch64-linux-gnu/14 -L/usr/lib/gcc/aarch64-linux-gnu/14/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/14/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/14/../../.. -z relro -z now ivar.o call_consensus_pileup.o alignment.o suffix_tree.o trim_primer_quality.o remove_reads_from_amplicon.o call_variants.o primer_bed.o allele_functions.o get_masked_amplicons.o get_common_variants.o parse_gff.o ref_seq.o interval_tree.o -lhts -lz -lpthread -lhts -lz -lpthread -lstdc++ -lm -lgcc_s -lgcc -lc -lgcc_s -lgcc /usr/lib/gcc/aarch64-linux-gnu/14/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/14/../../../aarch64-linux-gnu/crtn.o + /usr/libexec/gcc/aarch64-linux-gnu/14/collect2 -plugin /usr/libexec/gcc/aarch64-linux-gnu/14/liblto_plugin.so -plugin-opt=/usr/libexec/gcc/aarch64-linux-gnu/14/lto-wrapper -plugin-opt=-fresolution=/tmp/ccYRQdr4.res -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc -plugin-opt=-pass-through=-lc -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc --build-id --eh-frame-hdr --hash-style=gnu --as-needed -dynamic-linker /lib/ld-linux-aarch64.so.1 -X -EL -maarch64linux --fix-cortex-a53-843419 -pie -o ivar /usr/lib/gcc/aarch64-linux-gnu/14/../../../aarch64-linux-gnu/Scrt1.o /usr/lib/gcc/aarch64-linux-gnu/14/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/14/crtbeginS.o -L/usr/lib/gcc/aarch64-linux-gnu/14 -L/usr/lib/gcc/aarch64-linux-gnu/14/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/14/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/14/../../.. -z relro -z now ivar.o call_consensus_pileup.o alignment.o suffix_tree.o trim_primer_quality.o remove_reads_from_amplicon.o call_variants.o primer_bed.o allele_functions.o get_masked_amplicons.o get_common_variants.o parse_gff.o ref_seq.o interval_tree.o -lhts -lz -lpthread -lhts -lz -lpthread -lstdc++ -lm -lgcc_s -lgcc -lc -lgcc_s -lgcc /usr/lib/gcc/aarch64-linux-gnu/14/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/14/../../../aarch64-linux-gnu/crtn.o COLLECT_GCC_OPTIONS='-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-o' 'ivar' '-foffload-options=-l_GCC_m' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' '-dumpdir' 'ivar.' make[3]: Leaving directory '/build/reproducible-path/ivar-1.4.3+dfsg/src' Making all in tests @@ -1391,7 +1427,7 @@ COMPILER_PATH=/usr/libexec/gcc/aarch64-linux-gnu/14/:/usr/libexec/gcc/aarch64-linux-gnu/14/:/usr/libexec/gcc/aarch64-linux-gnu/:/usr/lib/gcc/aarch64-linux-gnu/14/:/usr/lib/gcc/aarch64-linux-gnu/ LIBRARY_PATH=/usr/lib/gcc/aarch64-linux-gnu/14/:/usr/lib/gcc/aarch64-linux-gnu/14/../../../aarch64-linux-gnu/:/usr/lib/gcc/aarch64-linux-gnu/14/../../../../lib/:/lib/aarch64-linux-gnu/:/lib/../lib/:/usr/lib/aarch64-linux-gnu/:/usr/lib/../lib/:/usr/lib/gcc/aarch64-linux-gnu/14/../../../:/lib/:/usr/lib/ COLLECT_GCC_OPTIONS='-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-o' 'ivar' '-foffload-options=-l_GCC_m' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' '-dumpdir' 'ivar.' - /usr/libexec/gcc/aarch64-linux-gnu/14/collect2 -plugin /usr/libexec/gcc/aarch64-linux-gnu/14/liblto_plugin.so -plugin-opt=/usr/libexec/gcc/aarch64-linux-gnu/14/lto-wrapper -plugin-opt=-fresolution=/tmp/ccWLdwLx.res -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc -plugin-opt=-pass-through=-lc -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc --build-id --eh-frame-hdr --hash-style=gnu --as-needed -dynamic-linker /lib/ld-linux-aarch64.so.1 -X -EL -maarch64linux --fix-cortex-a53-843419 -pie -o ivar /usr/lib/gcc/aarch64-linux-gnu/14/../../../aarch64-linux-gnu/Scrt1.o /usr/lib/gcc/aarch64-linux-gnu/14/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/14/crtbeginS.o -L/usr/lib/gcc/aarch64-linux-gnu/14 -L/usr/lib/gcc/aarch64-linux-gnu/14/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/14/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/14/../../.. -z relro -z now ivar.o call_consensus_pileup.o alignment.o suffix_tree.o trim_primer_quality.o remove_reads_from_amplicon.o call_variants.o primer_bed.o allele_functions.o get_masked_amplicons.o get_common_variants.o parse_gff.o ref_seq.o interval_tree.o -lhts -lz -lpthread -lhts -lz -lpthread -lstdc++ -lm -lgcc_s -lgcc -lc -lgcc_s -lgcc /usr/lib/gcc/aarch64-linux-gnu/14/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/14/../../../aarch64-linux-gnu/crtn.o + /usr/libexec/gcc/aarch64-linux-gnu/14/collect2 -plugin /usr/libexec/gcc/aarch64-linux-gnu/14/liblto_plugin.so -plugin-opt=/usr/libexec/gcc/aarch64-linux-gnu/14/lto-wrapper -plugin-opt=-fresolution=/tmp/cc9Kt6N5.res -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc -plugin-opt=-pass-through=-lc -plugin-opt=-pass-through=-lgcc_s -plugin-opt=-pass-through=-lgcc --build-id --eh-frame-hdr --hash-style=gnu --as-needed -dynamic-linker /lib/ld-linux-aarch64.so.1 -X -EL -maarch64linux --fix-cortex-a53-843419 -pie -o ivar /usr/lib/gcc/aarch64-linux-gnu/14/../../../aarch64-linux-gnu/Scrt1.o /usr/lib/gcc/aarch64-linux-gnu/14/../../../aarch64-linux-gnu/crti.o /usr/lib/gcc/aarch64-linux-gnu/14/crtbeginS.o -L/usr/lib/gcc/aarch64-linux-gnu/14 -L/usr/lib/gcc/aarch64-linux-gnu/14/../../../aarch64-linux-gnu -L/usr/lib/gcc/aarch64-linux-gnu/14/../../../../lib -L/lib/aarch64-linux-gnu -L/lib/../lib -L/usr/lib/aarch64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/aarch64-linux-gnu/14/../../.. -z relro -z now ivar.o call_consensus_pileup.o alignment.o suffix_tree.o trim_primer_quality.o remove_reads_from_amplicon.o call_variants.o primer_bed.o allele_functions.o get_masked_amplicons.o get_common_variants.o parse_gff.o ref_seq.o interval_tree.o -lhts -lz -lpthread -lhts -lz -lpthread -lstdc++ -lm -lgcc_s -lgcc -lc -lgcc_s -lgcc /usr/lib/gcc/aarch64-linux-gnu/14/crtendS.o /usr/lib/gcc/aarch64-linux-gnu/14/../../../aarch64-linux-gnu/crtn.o COLLECT_GCC_OPTIONS='-g' '-O2' '-ffile-prefix-map=/build/reproducible-path/ivar-1.4.3+dfsg=.' '-fstack-protector-strong' '-fstack-clash-protection' '-Wformat=1' '-Werror=format-security' '-mbranch-protection=standard' '-v' '-g' '-Wall' '-Wextra' '-Werror' '-o' 'ivar' '-foffload-options=-l_GCC_m' '-shared-libgcc' '-mlittle-endian' '-mabi=lp64' '-dumpdir' 'ivar.' make[3]: Entering directory '/build/reproducible-path/ivar-1.4.3+dfsg/src' make[3]: Nothing to be done for 'install-data-am'. @@ -1452,12 +1488,14 @@ 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/1150341/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/1150341/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/2697871 and its subdirectories -I: Current time: Mon Dec 16 07:00:04 -12 2024 -I: pbuilder-time-stamp: 1734375604 +I: removing directory /srv/workspace/pbuilder/1150341 and its subdirectories +I: Current time: Tue Dec 17 09:01:48 +14 2024 +I: pbuilder-time-stamp: 1734375708