Diff of the two buildlogs: -- --- b1/build.log 2025-02-20 21:19:45.090684058 +0000 +++ b2/build.log 2025-02-20 21:22:08.248227246 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Thu Feb 20 09:15:59 -12 2025 -I: pbuilder-time-stamp: 1740086159 +I: Current time: Thu Mar 26 17:42:48 +14 2026 +I: pbuilder-time-stamp: 1774496568 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration @@ -32,52 +32,84 @@ dpkg-source: info: applying cmakelists-fixups.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/3141773/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/3685470/tmp/hooks/D01_modify_environment starting +debug: Running on codethink03-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 Mar 26 03:42 /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/3685470/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/3685470/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='trixie' - HOME='/root' - HOST_ARCH='arm64' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - INVOCATION_ID='b7d4d5e790e04c61a6011f609a4708bc' - 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='3141773' - PS1='# ' - PS2='> ' + INVOCATION_ID=0082a5ee702f4c84ba2d1f8fb8193393 + 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=3685470 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.YawOpxOx/pbuilderrc_FBYg --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.YawOpxOx/b1 --logfile b1/build.log libvcflib_1.0.12+dfsg-1.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.YawOpxOx/pbuilderrc_qV6V --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.YawOpxOx/b2 --logfile b2/build.log libvcflib_1.0.12+dfsg-1.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 6.1.0-31-cloud-arm64 #1 SMP Debian 6.1.128-1 (2025-02-07) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-31-cloud-arm64 #1 SMP Debian 6.1.128-1 (2025-02-07) 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/3141773/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/3685470/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -289,7 +321,7 @@ Get: 142 http://deb.debian.org/debian trixie/main arm64 python3.13-dev arm64 3.13.2-1 [505 kB] Get: 143 http://deb.debian.org/debian trixie/main arm64 python3-dev arm64 3.13.1-2 [26.1 kB] Get: 144 http://deb.debian.org/debian trixie/main arm64 python3-pybind11 all 2.13.6-2 [215 kB] -Fetched 69.1 MB in 1s (111 MB/s) +Fetched 69.1 MB in 0s (204 MB/s) Preconfiguring packages ... Selecting previously unselected package libpython3.13-minimal:arm64. (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 ... 19923 files and directories currently installed.) @@ -768,8 +800,8 @@ Setting up tzdata (2025a-2) ... Current default time zone: 'Etc/UTC' -Local time is now: Thu Feb 20 21:16:47 UTC 2025. -Universal Time is now: Thu Feb 20 21:16:47 UTC 2025. +Local time is now: Thu Mar 26 03:43:12 UTC 2026. +Universal Time is now: Thu Mar 26 03:43:12 UTC 2026. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20220109.1) ... @@ -892,7 +924,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/libvcflib-1.0.12+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 > ../libvcflib_1.0.12+dfsg-1_source.changes +I: user script /srv/workspace/pbuilder/3685470/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/3685470/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/libvcflib-1.0.12+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 > ../libvcflib_1.0.12+dfsg-1_source.changes dpkg-buildpackage: info: source package libvcflib dpkg-buildpackage: info: source version 1.0.12+dfsg-1 dpkg-buildpackage: info: source distribution unstable @@ -984,8 +1020,8 @@ -- Using included tabixpp -- WFA using include /usr/include/wfa2lib Pandoc needs to be installed to generate the man pages --- Configuring done (9.7s) --- Generating done (0.5s) +-- Configuring done (6.2s) +-- Generating done (0.3s) CMake Warning: Manually-specified variables were not used by the project: @@ -1012,30 +1048,30 @@ make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcflib.dir/build.make CMakeFiles/vcflib.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 0%] Building CXX object CMakeFiles/vcflib.dir/src/legacy.cpp.o -[ 1%] Building CXX object CMakeFiles/vcflib.dir/src/vcf-wfa.cpp.o +[ 0%] Building CXX object CMakeFiles/vcflib.dir/src/canonicalize.cpp.o +[ 1%] Building CXX object CMakeFiles/vcflib.dir/src/Variant.cpp.o +[ 2%] Building CXX object CMakeFiles/vcflib.dir/src/rnglib.cpp.o +[ 2%] Building CXX object CMakeFiles/vcflib.dir/src/legacy.cpp.o +[ 3%] Building CXX object CMakeFiles/vcflib.dir/src/vcf-wfa.cpp.o +[ 3%] Building CXX object CMakeFiles/vcflib.dir/src/var.cpp.o +[ 3%] Building CXX object CMakeFiles/vcflib.dir/src/cdflib.cpp.o +[ 4%] Building CXX object CMakeFiles/vcflib.dir/src/pdflib.cpp.o +[ 5%] Building CXX object CMakeFiles/vcflib.dir/src/split.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -Dvcflib_EXPORTS -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIC -MD -MT CMakeFiles/vcflib.dir/src/legacy.cpp.o -MF CMakeFiles/vcflib.dir/src/legacy.cpp.o.d -o CMakeFiles/vcflib.dir/src/legacy.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/legacy.cpp -[ 1%] Building CXX object CMakeFiles/vcflib.dir/src/vcf-c-api.cpp.o +[ 5%] Building CXX object CMakeFiles/vcflib.dir/src/vcf-c-api.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -Dvcflib_EXPORTS -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIC -MD -MT CMakeFiles/vcflib.dir/src/vcf-wfa.cpp.o -MF CMakeFiles/vcflib.dir/src/vcf-wfa.cpp.o.d -o CMakeFiles/vcflib.dir/src/vcf-wfa.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcf-wfa.cpp -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -Dvcflib_EXPORTS -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIC -MD -MT CMakeFiles/vcflib.dir/src/vcf-c-api.cpp.o -MF CMakeFiles/vcflib.dir/src/vcf-c-api.cpp.o.d -o CMakeFiles/vcflib.dir/src/vcf-c-api.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcf-c-api.cpp -[ 2%] Building CXX object CMakeFiles/vcflib.dir/src/Variant.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -Dvcflib_EXPORTS -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIC -MD -MT CMakeFiles/vcflib.dir/src/Variant.cpp.o -MF CMakeFiles/vcflib.dir/src/Variant.cpp.o.d -o CMakeFiles/vcflib.dir/src/Variant.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/Variant.cpp -[ 2%] Building CXX object CMakeFiles/vcflib.dir/src/canonicalize.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -Dvcflib_EXPORTS -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIC -MD -MT CMakeFiles/vcflib.dir/src/canonicalize.cpp.o -MF CMakeFiles/vcflib.dir/src/canonicalize.cpp.o.d -o CMakeFiles/vcflib.dir/src/canonicalize.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/canonicalize.cpp -[ 3%] Building CXX object CMakeFiles/vcflib.dir/src/rnglib.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -Dvcflib_EXPORTS -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIC -MD -MT CMakeFiles/vcflib.dir/src/rnglib.cpp.o -MF CMakeFiles/vcflib.dir/src/rnglib.cpp.o.d -o CMakeFiles/vcflib.dir/src/rnglib.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/rnglib.cpp -[ 3%] Building CXX object CMakeFiles/vcflib.dir/src/var.cpp.o -[ 4%] Building CXX object CMakeFiles/vcflib.dir/src/pdflib.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -Dvcflib_EXPORTS -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIC -MD -MT CMakeFiles/vcflib.dir/src/vcf-c-api.cpp.o -MF CMakeFiles/vcflib.dir/src/vcf-c-api.cpp.o.d -o CMakeFiles/vcflib.dir/src/vcf-c-api.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcf-c-api.cpp /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -Dvcflib_EXPORTS -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIC -MD -MT CMakeFiles/vcflib.dir/src/var.cpp.o -MF CMakeFiles/vcflib.dir/src/var.cpp.o.d -o CMakeFiles/vcflib.dir/src/var.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/var.cpp /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -Dvcflib_EXPORTS -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIC -MD -MT CMakeFiles/vcflib.dir/src/pdflib.cpp.o -MF CMakeFiles/vcflib.dir/src/pdflib.cpp.o.d -o CMakeFiles/vcflib.dir/src/pdflib.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/pdflib.cpp -[ 4%] Building CXX object CMakeFiles/vcflib.dir/src/cdflib.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -Dvcflib_EXPORTS -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIC -MD -MT CMakeFiles/vcflib.dir/src/cdflib.cpp.o -MF CMakeFiles/vcflib.dir/src/cdflib.cpp.o.d -o CMakeFiles/vcflib.dir/src/cdflib.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/cdflib.cpp -[ 5%] Building CXX object CMakeFiles/vcflib.dir/src/split.cpp.o +[ 5%] Building CXX object CMakeFiles/vcflib.dir/src/rkmh.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -Dvcflib_EXPORTS -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIC -MD -MT CMakeFiles/vcflib.dir/src/split.cpp.o -MF CMakeFiles/vcflib.dir/src/split.cpp.o.d -o CMakeFiles/vcflib.dir/src/split.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/split.cpp +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -Dvcflib_EXPORTS -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIC -MD -MT CMakeFiles/vcflib.dir/src/rkmh.cpp.o -MF CMakeFiles/vcflib.dir/src/rkmh.cpp.o.d -o CMakeFiles/vcflib.dir/src/rkmh.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/rkmh.cpp [ 6%] Building CXX object CMakeFiles/vcflib.dir/src/murmur3.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -Dvcflib_EXPORTS -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIC -MD -MT CMakeFiles/vcflib.dir/src/murmur3.cpp.o -MF CMakeFiles/vcflib.dir/src/murmur3.cpp.o.d -o CMakeFiles/vcflib.dir/src/murmur3.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/murmur3.cpp -[ 6%] Building CXX object CMakeFiles/vcflib.dir/src/rkmh.cpp.o -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -Dvcflib_EXPORTS -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIC -MD -MT CMakeFiles/vcflib.dir/src/rkmh.cpp.o -MF CMakeFiles/vcflib.dir/src/rkmh.cpp.o.d -o CMakeFiles/vcflib.dir/src/rkmh.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/rkmh.cpp [ 6%] Building CXX object CMakeFiles/vcflib.dir/src/LeftAlign.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -Dvcflib_EXPORTS -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIC -MD -MT CMakeFiles/vcflib.dir/src/LeftAlign.cpp.o -MF CMakeFiles/vcflib.dir/src/LeftAlign.cpp.o.d -o CMakeFiles/vcflib.dir/src/LeftAlign.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/LeftAlign.cpp [ 7%] Building CXX object CMakeFiles/vcflib.dir/src/cigar.cpp.o @@ -1101,100 +1137,100 @@ make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 9%] Built target vcflib make -f CMakeFiles/vcfecho.dir/build.make CMakeFiles/vcfecho.dir/depend +make -f CMakeFiles/dumpContigsFromHeader.dir/build.make CMakeFiles/dumpContigsFromHeader.dir/depend +make -f CMakeFiles/bFst.dir/build.make CMakeFiles/bFst.dir/depend +make -f CMakeFiles/pVst.dir/build.make CMakeFiles/pVst.dir/depend +make -f CMakeFiles/hapLrt.dir/build.make CMakeFiles/hapLrt.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfecho.dir/DependInfo.cmake "--color=" -make -f CMakeFiles/dumpContigsFromHeader.dir/build.make CMakeFiles/dumpContigsFromHeader.dir/depend +make -f CMakeFiles/popStats.dir/build.make CMakeFiles/popStats.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/dumpContigsFromHeader.dir/DependInfo.cmake "--color=" -make -f CMakeFiles/bFst.dir/build.make CMakeFiles/bFst.dir/depend +make -f CMakeFiles/wcFst.dir/build.make CMakeFiles/wcFst.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +make -f CMakeFiles/iHS.dir/build.make CMakeFiles/iHS.dir/depend cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/bFst.dir/DependInfo.cmake "--color=" -make -f CMakeFiles/pVst.dir/build.make CMakeFiles/pVst.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -make -f CMakeFiles/hapLrt.dir/build.make CMakeFiles/hapLrt.dir/depend cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/pVst.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +make -f CMakeFiles/segmentFst.dir/build.make CMakeFiles/segmentFst.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/hapLrt.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -make -f CMakeFiles/vcfecho.dir/build.make CMakeFiles/vcfecho.dir/build -make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -make -f CMakeFiles/dumpContigsFromHeader.dir/build.make CMakeFiles/dumpContigsFromHeader.dir/build -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -make -f CMakeFiles/bFst.dir/build.make CMakeFiles/bFst.dir/build -[ 10%] Building CXX object CMakeFiles/vcfecho.dir/src/vcfecho.cpp.o -make -f CMakeFiles/popStats.dir/build.make CMakeFiles/popStats.dir/depend -make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfecho.dir/src/vcfecho.cpp.o -MF CMakeFiles/vcfecho.dir/src/vcfecho.cpp.o.d -o CMakeFiles/vcfecho.dir/src/vcfecho.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfecho.cpp +make -f CMakeFiles/segmentIhs.dir/build.make CMakeFiles/segmentIhs.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/popStats.dir/DependInfo.cmake "--color=" -make -f CMakeFiles/pVst.dir/build.make CMakeFiles/pVst.dir/build -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -make -f CMakeFiles/hapLrt.dir/build.make CMakeFiles/hapLrt.dir/build -[ 11%] Building CXX object CMakeFiles/dumpContigsFromHeader.dir/src/dumpContigsFromHeader.cpp.o make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -make -f CMakeFiles/wcFst.dir/build.make CMakeFiles/wcFst.dir/depend -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/dumpContigsFromHeader.dir/src/dumpContigsFromHeader.cpp.o -MF CMakeFiles/dumpContigsFromHeader.dir/src/dumpContigsFromHeader.cpp.o.d -o CMakeFiles/dumpContigsFromHeader.dir/src/dumpContigsFromHeader.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/dumpContigsFromHeader.cpp -[ 12%] Building CXX object CMakeFiles/bFst.dir/src/bFst.cpp.o -make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -make -f CMakeFiles/iHS.dir/build.make CMakeFiles/iHS.dir/depend cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/wcFst.dir/DependInfo.cmake "--color=" -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/bFst.dir/src/bFst.cpp.o -MF CMakeFiles/bFst.dir/src/bFst.cpp.o.d -o CMakeFiles/bFst.dir/src/bFst.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/bFst.cpp make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/iHS.dir/DependInfo.cmake "--color=" -[ 13%] Building CXX object CMakeFiles/pVst.dir/src/pVst.cpp.o -make -f CMakeFiles/segmentFst.dir/build.make CMakeFiles/segmentFst.dir/depend -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 14%] Building CXX object CMakeFiles/hapLrt.dir/src/hapLrt.cpp.o -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/pVst.dir/src/pVst.cpp.o -MF CMakeFiles/pVst.dir/src/pVst.cpp.o.d -o CMakeFiles/pVst.dir/src/pVst.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/pVst.cpp make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/segmentFst.dir/DependInfo.cmake "--color=" -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/hapLrt.dir/src/hapLrt.cpp.o -MF CMakeFiles/hapLrt.dir/src/hapLrt.cpp.o.d -o CMakeFiles/hapLrt.dir/src/hapLrt.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/hapLrt.cpp -make -f CMakeFiles/popStats.dir/build.make CMakeFiles/popStats.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -make -f CMakeFiles/segmentIhs.dir/build.make CMakeFiles/segmentIhs.dir/depend +cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/segmentIhs.dir/DependInfo.cmake "--color=" +make -f CMakeFiles/genotypeSummary.dir/build.make CMakeFiles/genotypeSummary.dir/depend +make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/genotypeSummary.dir/DependInfo.cmake "--color=" +make -f CMakeFiles/sequenceDiversity.dir/build.make CMakeFiles/sequenceDiversity.dir/depend +make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/sequenceDiversity.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +make -f CMakeFiles/popStats.dir/build.make CMakeFiles/popStats.dir/build +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -make -f CMakeFiles/wcFst.dir/build.make CMakeFiles/wcFst.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/segmentIhs.dir/DependInfo.cmake "--color=" +make -f CMakeFiles/vcfecho.dir/build.make CMakeFiles/vcfecho.dir/build +make -f CMakeFiles/dumpContigsFromHeader.dir/build.make CMakeFiles/dumpContigsFromHeader.dir/build +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -make -f CMakeFiles/iHS.dir/build.make CMakeFiles/iHS.dir/build -[ 15%] Building CXX object CMakeFiles/popStats.dir/src/popStats.cpp.o make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +make -f CMakeFiles/bFst.dir/build.make CMakeFiles/bFst.dir/build +make -f CMakeFiles/hapLrt.dir/build.make CMakeFiles/hapLrt.dir/build +make -f CMakeFiles/wcFst.dir/build.make CMakeFiles/wcFst.dir/build +make -f CMakeFiles/iHS.dir/build.make CMakeFiles/iHS.dir/build make -f CMakeFiles/segmentFst.dir/build.make CMakeFiles/segmentFst.dir/build -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/popStats.dir/src/popStats.cpp.o -MF CMakeFiles/popStats.dir/src/popStats.cpp.o.d -o CMakeFiles/popStats.dir/src/popStats.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/popStats.cpp -[ 15%] Building CXX object CMakeFiles/wcFst.dir/src/wcFst.cpp.o -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/wcFst.dir/src/wcFst.cpp.o -MF CMakeFiles/wcFst.dir/src/wcFst.cpp.o.d -o CMakeFiles/wcFst.dir/src/wcFst.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/wcFst.cpp make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -make -f CMakeFiles/segmentIhs.dir/build.make CMakeFiles/segmentIhs.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -make -f CMakeFiles/genotypeSummary.dir/build.make CMakeFiles/genotypeSummary.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -make -f CMakeFiles/sequenceDiversity.dir/build.make CMakeFiles/sequenceDiversity.dir/depend -cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/genotypeSummary.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/sequenceDiversity.dir/DependInfo.cmake "--color=" -[ 16%] Building CXX object CMakeFiles/iHS.dir/src/iHS.cpp.o -[ 17%] Building CXX object CMakeFiles/segmentFst.dir/src/segmentFst.cpp.o -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/iHS.dir/src/iHS.cpp.o -MF CMakeFiles/iHS.dir/src/iHS.cpp.o.d -o CMakeFiles/iHS.dir/src/iHS.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/iHS.cpp -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/segmentFst.dir/src/segmentFst.cpp.o -MF CMakeFiles/segmentFst.dir/src/segmentFst.cpp.o.d -o CMakeFiles/segmentFst.dir/src/segmentFst.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/segmentFst.cpp -[ 18%] Building CXX object CMakeFiles/segmentIhs.dir/src/segmentIhs.cpp.o -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/segmentIhs.dir/src/segmentIhs.cpp.o -MF CMakeFiles/segmentIhs.dir/src/segmentIhs.cpp.o.d -o CMakeFiles/segmentIhs.dir/src/segmentIhs.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/segmentIhs.cpp +make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +make -f CMakeFiles/segmentIhs.dir/build.make CMakeFiles/segmentIhs.dir/build +make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +make -f CMakeFiles/pVst.dir/build.make CMakeFiles/pVst.dir/build make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -make -f CMakeFiles/genotypeSummary.dir/build.make CMakeFiles/genotypeSummary.dir/build make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 11%] Building CXX object CMakeFiles/vcfecho.dir/src/vcfecho.cpp.o +[ 10%] Building CXX object CMakeFiles/popStats.dir/src/popStats.cpp.o +make -f CMakeFiles/genotypeSummary.dir/build.make CMakeFiles/genotypeSummary.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 12%] Building CXX object CMakeFiles/dumpContigsFromHeader.dir/src/dumpContigsFromHeader.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/popStats.dir/src/popStats.cpp.o -MF CMakeFiles/popStats.dir/src/popStats.cpp.o.d -o CMakeFiles/popStats.dir/src/popStats.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/popStats.cpp make -f CMakeFiles/sequenceDiversity.dir/build.make CMakeFiles/sequenceDiversity.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 19%] Building CXX object CMakeFiles/genotypeSummary.dir/src/genotypeSummary.cpp.o -[ 20%] Building CXX object CMakeFiles/sequenceDiversity.dir/src/sequenceDiversity.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfecho.dir/src/vcfecho.cpp.o -MF CMakeFiles/vcfecho.dir/src/vcfecho.cpp.o.d -o CMakeFiles/vcfecho.dir/src/vcfecho.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfecho.cpp +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/dumpContigsFromHeader.dir/src/dumpContigsFromHeader.cpp.o -MF CMakeFiles/dumpContigsFromHeader.dir/src/dumpContigsFromHeader.cpp.o.d -o CMakeFiles/dumpContigsFromHeader.dir/src/dumpContigsFromHeader.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/dumpContigsFromHeader.cpp +[ 12%] Building CXX object CMakeFiles/wcFst.dir/src/wcFst.cpp.o +[ 13%] Building CXX object CMakeFiles/bFst.dir/src/bFst.cpp.o +make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 14%] Building CXX object CMakeFiles/hapLrt.dir/src/hapLrt.cpp.o +[ 15%] Building CXX object CMakeFiles/iHS.dir/src/iHS.cpp.o +[ 16%] Building CXX object CMakeFiles/segmentFst.dir/src/segmentFst.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/wcFst.dir/src/wcFst.cpp.o -MF CMakeFiles/wcFst.dir/src/wcFst.cpp.o.d -o CMakeFiles/wcFst.dir/src/wcFst.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/wcFst.cpp +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/bFst.dir/src/bFst.cpp.o -MF CMakeFiles/bFst.dir/src/bFst.cpp.o.d -o CMakeFiles/bFst.dir/src/bFst.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/bFst.cpp +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/hapLrt.dir/src/hapLrt.cpp.o -MF CMakeFiles/hapLrt.dir/src/hapLrt.cpp.o.d -o CMakeFiles/hapLrt.dir/src/hapLrt.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/hapLrt.cpp +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/iHS.dir/src/iHS.cpp.o -MF CMakeFiles/iHS.dir/src/iHS.cpp.o.d -o CMakeFiles/iHS.dir/src/iHS.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/iHS.cpp +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/segmentFst.dir/src/segmentFst.cpp.o -MF CMakeFiles/segmentFst.dir/src/segmentFst.cpp.o.d -o CMakeFiles/segmentFst.dir/src/segmentFst.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/segmentFst.cpp +[ 17%] Building CXX object CMakeFiles/segmentIhs.dir/src/segmentIhs.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/segmentIhs.dir/src/segmentIhs.cpp.o -MF CMakeFiles/segmentIhs.dir/src/segmentIhs.cpp.o.d -o CMakeFiles/segmentIhs.dir/src/segmentIhs.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/segmentIhs.cpp +[ 18%] Building CXX object CMakeFiles/genotypeSummary.dir/src/genotypeSummary.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/genotypeSummary.dir/src/genotypeSummary.cpp.o -MF CMakeFiles/genotypeSummary.dir/src/genotypeSummary.cpp.o.d -o CMakeFiles/genotypeSummary.dir/src/genotypeSummary.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/genotypeSummary.cpp +[ 19%] Building CXX object CMakeFiles/pVst.dir/src/pVst.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/pVst.dir/src/pVst.cpp.o -MF CMakeFiles/pVst.dir/src/pVst.cpp.o.d -o CMakeFiles/pVst.dir/src/pVst.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/pVst.cpp +[ 20%] Building CXX object CMakeFiles/sequenceDiversity.dir/src/sequenceDiversity.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/sequenceDiversity.dir/src/sequenceDiversity.cpp.o -MF CMakeFiles/sequenceDiversity.dir/src/sequenceDiversity.cpp.o.d -o CMakeFiles/sequenceDiversity.dir/src/sequenceDiversity.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/sequenceDiversity.cpp [ 20%] Linking CXX executable segmentFst /usr/bin/cmake -E cmake_link_script CMakeFiles/segmentFst.dir/link.txt --verbose=1 @@ -1204,51 +1240,42 @@ /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfecho.dir/link.txt --verbose=1 [ 20%] Linking CXX executable dumpContigsFromHeader /usr/bin/cmake -E cmake_link_script CMakeFiles/dumpContigsFromHeader.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/segmentFst.dir/link.d CMakeFiles/segmentFst.dir/src/segmentFst.cpp.o -o segmentFst -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +[ 20%] Linking CXX executable bFst +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/segmentIhs.dir/link.d CMakeFiles/segmentIhs.dir/src/segmentIhs.cpp.o -o segmentIhs -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 20%] Built target segmentFst +/usr/bin/cmake -E cmake_link_script CMakeFiles/bFst.dir/link.txt --verbose=1 +[ 20%] Built target segmentIhs make -f CMakeFiles/pFst.dir/build.make CMakeFiles/pFst.dir/depend +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/segmentFst.dir/link.d CMakeFiles/segmentFst.dir/src/segmentFst.cpp.o -o segmentFst -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/pFst.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/pFst.dir/build.make CMakeFiles/pFst.dir/build +[ 20%] Built target segmentFst make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +make -f CMakeFiles/smoother.dir/build.make CMakeFiles/smoother.dir/depend [ 21%] Building CXX object CMakeFiles/pFst.dir/src/pFst.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/pFst.dir/src/pFst.cpp.o -MF CMakeFiles/pFst.dir/src/pFst.cpp.o.d -o CMakeFiles/pFst.dir/src/pFst.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/pFst.cpp -[ 21%] Linking CXX executable bFst -/usr/bin/cmake -E cmake_link_script CMakeFiles/bFst.dir/link.txt --verbose=1 -[ 22%] Linking CXX executable wcFst -/usr/bin/cmake -E cmake_link_script CMakeFiles/wcFst.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/segmentIhs.dir/link.d CMakeFiles/segmentIhs.dir/src/segmentIhs.cpp.o -o segmentIhs -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 22%] Built target segmentIhs -make -f CMakeFiles/smoother.dir/build.make CMakeFiles/smoother.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/smoother.dir/DependInfo.cmake "--color=" -[ 22%] Linking CXX executable pVst -/usr/bin/cmake -E cmake_link_script CMakeFiles/pVst.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/dumpContigsFromHeader.dir/link.d CMakeFiles/dumpContigsFromHeader.dir/src/dumpContigsFromHeader.cpp.o -o dumpContigsFromHeader -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/smoother.dir/build.make CMakeFiles/smoother.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 22%] Built target dumpContigsFromHeader -make -f CMakeFiles/vcfld.dir/build.make CMakeFiles/vcfld.dir/depend -make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfld.dir/DependInfo.cmake "--color=" +[ 22%] Linking CXX executable wcFst +/usr/bin/cmake -E cmake_link_script CMakeFiles/wcFst.dir/link.txt --verbose=1 [ 23%] Building CXX object CMakeFiles/smoother.dir/src/smoother.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/smoother.dir/src/smoother.cpp.o -MF CMakeFiles/smoother.dir/src/smoother.cpp.o.d -o CMakeFiles/smoother.dir/src/smoother.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/smoother.cpp -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -make -f CMakeFiles/vcfld.dir/build.make CMakeFiles/vcfld.dir/build -[ 23%] Linking CXX executable iHS -make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -/usr/bin/cmake -E cmake_link_script CMakeFiles/iHS.dir/link.txt --verbose=1 -[ 23%] Building CXX object CMakeFiles/vcfld.dir/src/vcfld.cpp.o -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfld.dir/src/vcfld.cpp.o -MF CMakeFiles/vcfld.dir/src/vcfld.cpp.o.d -o CMakeFiles/vcfld.dir/src/vcfld.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfld.cpp [ 23%] Linking CXX executable popStats /usr/bin/cmake -E cmake_link_script CMakeFiles/popStats.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/dumpContigsFromHeader.dir/link.d CMakeFiles/dumpContigsFromHeader.dir/src/dumpContigsFromHeader.cpp.o -o dumpContigsFromHeader -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfecho.dir/link.d CMakeFiles/vcfecho.dir/src/vcfecho.cpp.o -o vcfecho -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 23%] Built target dumpContigsFromHeader +make -f CMakeFiles/vcfld.dir/build.make CMakeFiles/vcfld.dir/depend +make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfld.dir/DependInfo.cmake "--color=" [ 23%] Built target vcfecho make -f CMakeFiles/plotHaps.dir/build.make CMakeFiles/plotHaps.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' @@ -1258,15 +1285,26 @@ make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 24%] Building CXX object CMakeFiles/plotHaps.dir/src/plotHaps.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/plotHaps.dir/src/plotHaps.cpp.o -MF CMakeFiles/plotHaps.dir/src/plotHaps.cpp.o.d -o CMakeFiles/plotHaps.dir/src/plotHaps.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/plotHaps.cpp +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +make -f CMakeFiles/vcfld.dir/build.make CMakeFiles/vcfld.dir/build +make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 24%] Building CXX object CMakeFiles/vcfld.dir/src/vcfld.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfld.dir/src/vcfld.cpp.o -MF CMakeFiles/vcfld.dir/src/vcfld.cpp.o.d -o CMakeFiles/vcfld.dir/src/vcfld.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfld.cpp +[ 24%] Linking CXX executable hapLrt +/usr/bin/cmake -E cmake_link_script CMakeFiles/hapLrt.dir/link.txt --verbose=1 +[ 24%] Linking CXX executable iHS +/usr/bin/cmake -E cmake_link_script CMakeFiles/iHS.dir/link.txt --verbose=1 [ 24%] Linking CXX executable sequenceDiversity /usr/bin/cmake -E cmake_link_script CMakeFiles/sequenceDiversity.dir/link.txt --verbose=1 +[ 24%] Linking CXX executable pVst +/usr/bin/cmake -E cmake_link_script CMakeFiles/pVst.dir/link.txt --verbose=1 [ 24%] Linking CXX executable genotypeSummary -[ 24%] Linking CXX executable hapLrt /usr/bin/cmake -E cmake_link_script CMakeFiles/genotypeSummary.dir/link.txt --verbose=1 -/usr/bin/cmake -E cmake_link_script CMakeFiles/hapLrt.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/bFst.dir/link.d CMakeFiles/bFst.dir/src/bFst.cpp.o -o bFst -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +[ 24%] Linking CXX executable smoother +/usr/bin/cmake -E cmake_link_script CMakeFiles/smoother.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/wcFst.dir/link.d CMakeFiles/wcFst.dir/src/wcFst.cpp.o -o wcFst -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 24%] Built target bFst +[ 24%] Built target wcFst make -f CMakeFiles/abba-baba.dir/build.make CMakeFiles/abba-baba.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/abba-baba.dir/DependInfo.cmake "--color=" @@ -1275,60 +1313,58 @@ make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 24%] Building CXX object CMakeFiles/abba-baba.dir/src/abba-baba.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/abba-baba.dir/src/abba-baba.cpp.o -MF CMakeFiles/abba-baba.dir/src/abba-baba.cpp.o.d -o CMakeFiles/abba-baba.dir/src/abba-baba.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/abba-baba.cpp -[ 24%] Linking CXX executable smoother -/usr/bin/cmake -E cmake_link_script CMakeFiles/smoother.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/wcFst.dir/link.d CMakeFiles/wcFst.dir/src/wcFst.cpp.o -o wcFst -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/popStats.dir/link.d CMakeFiles/popStats.dir/src/popStats.cpp.o -o popStats -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 24%] Built target wcFst +[ 24%] Built target popStats make -f CMakeFiles/permuteGPAT++.dir/build.make CMakeFiles/permuteGPAT++.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/permuteGPAT++.dir/DependInfo.cmake "--color=" -[ 24%] Linking CXX executable pFst -/usr/bin/cmake -E cmake_link_script CMakeFiles/pFst.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/permuteGPAT++.dir/build.make CMakeFiles/permuteGPAT++.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 25%] Building CXX object CMakeFiles/permuteGPAT++.dir/src/permuteGPAT++.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/permuteGPAT++.dir/src/permuteGPAT++.cpp.o -MF CMakeFiles/permuteGPAT++.dir/src/permuteGPAT++.cpp.o.d -o CMakeFiles/permuteGPAT++.dir/src/permuteGPAT++.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/permuteGPAT++.cpp -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/popStats.dir/link.d CMakeFiles/popStats.dir/src/popStats.cpp.o -o popStats -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +[ 25%] Linking CXX executable pFst +/usr/bin/cmake -E cmake_link_script CMakeFiles/pFst.dir/link.txt --verbose=1 +[ 25%] Linking CXX executable plotHaps +/usr/bin/cmake -E cmake_link_script CMakeFiles/plotHaps.dir/link.txt --verbose=1 +[ 26%] Linking CXX executable vcfld +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfld.dir/link.txt --verbose=1 +[ 26%] Linking CXX executable permuteGPAT++ +/usr/bin/cmake -E cmake_link_script CMakeFiles/permuteGPAT++.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/bFst.dir/link.d CMakeFiles/bFst.dir/src/bFst.cpp.o -o bFst -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 25%] Built target popStats +[ 26%] Built target bFst make -f CMakeFiles/permuteSmooth.dir/build.make CMakeFiles/permuteSmooth.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/permuteSmooth.dir/DependInfo.cmake "--color=" -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/pVst.dir/link.d CMakeFiles/pVst.dir/src/pVst.cpp.o -o pVst -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/sequenceDiversity.dir/link.d CMakeFiles/sequenceDiversity.dir/src/sequenceDiversity.cpp.o -o sequenceDiversity -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/permuteSmooth.dir/build.make CMakeFiles/permuteSmooth.dir/build -[ 25%] Built target pVst make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 27%] Building CXX object CMakeFiles/permuteSmooth.dir/src/permuteSmooth.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/permuteSmooth.dir/src/permuteSmooth.cpp.o -MF CMakeFiles/permuteSmooth.dir/src/permuteSmooth.cpp.o.d -o CMakeFiles/permuteSmooth.dir/src/permuteSmooth.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/permuteSmooth.cpp +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/iHS.dir/link.d CMakeFiles/iHS.dir/src/iHS.cpp.o -o iHS -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 27%] Built target iHS make -f CMakeFiles/normalize-iHS.dir/build.make CMakeFiles/normalize-iHS.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/normalize-iHS.dir/DependInfo.cmake "--color=" -[ 25%] Built target sequenceDiversity -make -f CMakeFiles/meltEHH.dir/build.make CMakeFiles/meltEHH.dir/depend -make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/meltEHH.dir/DependInfo.cmake "--color=" -[ 26%] Building CXX object CMakeFiles/permuteSmooth.dir/src/permuteSmooth.cpp.o make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/permuteSmooth.dir/src/permuteSmooth.cpp.o -MF CMakeFiles/permuteSmooth.dir/src/permuteSmooth.cpp.o.d -o CMakeFiles/permuteSmooth.dir/src/permuteSmooth.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/permuteSmooth.cpp make -f CMakeFiles/normalize-iHS.dir/build.make CMakeFiles/normalize-iHS.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/smoother.dir/link.d CMakeFiles/smoother.dir/src/smoother.cpp.o -o smoother -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 28%] Building CXX object CMakeFiles/normalize-iHS.dir/src/normalize-iHS.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/normalize-iHS.dir/src/normalize-iHS.cpp.o -MF CMakeFiles/normalize-iHS.dir/src/normalize-iHS.cpp.o.d -o CMakeFiles/normalize-iHS.dir/src/normalize-iHS.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/normalize-iHS.cpp +[ 28%] Built target smoother +make -f CMakeFiles/meltEHH.dir/build.make CMakeFiles/meltEHH.dir/depend +make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/meltEHH.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/meltEHH.dir/build.make CMakeFiles/meltEHH.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 27%] Building CXX object CMakeFiles/normalize-iHS.dir/src/normalize-iHS.cpp.o -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/normalize-iHS.dir/src/normalize-iHS.cpp.o -MF CMakeFiles/normalize-iHS.dir/src/normalize-iHS.cpp.o.d -o CMakeFiles/normalize-iHS.dir/src/normalize-iHS.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/normalize-iHS.cpp -[ 28%] Building CXX object CMakeFiles/meltEHH.dir/src/meltEHH.cpp.o +[ 29%] Building CXX object CMakeFiles/meltEHH.dir/src/meltEHH.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/meltEHH.dir/src/meltEHH.cpp.o -MF CMakeFiles/meltEHH.dir/src/meltEHH.cpp.o.d -o CMakeFiles/meltEHH.dir/src/meltEHH.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/meltEHH.cpp -[ 29%] Linking CXX executable vcfld -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfld.dir/link.txt --verbose=1 -[ 29%] Linking CXX executable plotHaps -/usr/bin/cmake -E cmake_link_script CMakeFiles/plotHaps.dir/link.txt --verbose=1 -[ 29%] Linking CXX executable permuteGPAT++ -/usr/bin/cmake -E cmake_link_script CMakeFiles/permuteGPAT++.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/genotypeSummary.dir/link.d CMakeFiles/genotypeSummary.dir/src/genotypeSummary.cpp.o -o genotypeSummary -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 29%] Built target genotypeSummary @@ -1338,50 +1374,50 @@ make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfnullgenofields.dir/build.make CMakeFiles/vcfnullgenofields.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/smoother.dir/link.d CMakeFiles/smoother.dir/src/smoother.cpp.o -o smoother -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 29%] Building CXX object CMakeFiles/vcfnullgenofields.dir/src/vcfnullgenofields.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfnullgenofields.dir/src/vcfnullgenofields.cpp.o -MF CMakeFiles/vcfnullgenofields.dir/src/vcfnullgenofields.cpp.o.d -o CMakeFiles/vcfnullgenofields.dir/src/vcfnullgenofields.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfnullgenofields.cpp -[ 29%] Built target smoother +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/sequenceDiversity.dir/link.d CMakeFiles/sequenceDiversity.dir/src/sequenceDiversity.cpp.o -o sequenceDiversity -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 29%] Built target sequenceDiversity make -f CMakeFiles/vcfaltcount.dir/build.make CMakeFiles/vcfaltcount.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfaltcount.dir/DependInfo.cmake "--color=" -[ 29%] Linking CXX executable abba-baba -/usr/bin/cmake -E cmake_link_script CMakeFiles/abba-baba.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfaltcount.dir/build.make CMakeFiles/vcfaltcount.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 30%] Building CXX object CMakeFiles/vcfaltcount.dir/src/vcfaltcount.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfaltcount.dir/src/vcfaltcount.cpp.o -MF CMakeFiles/vcfaltcount.dir/src/vcfaltcount.cpp.o.d -o CMakeFiles/vcfaltcount.dir/src/vcfaltcount.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfaltcount.cpp -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/iHS.dir/link.d CMakeFiles/iHS.dir/src/iHS.cpp.o -o iHS -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 30%] Built target iHS -make -f CMakeFiles/vcfhetcount.dir/build.make CMakeFiles/vcfhetcount.dir/depend -make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfhetcount.dir/DependInfo.cmake "--color=" -[ 30%] Linking CXX executable permuteSmooth -/usr/bin/cmake -E cmake_link_script CMakeFiles/permuteSmooth.dir/link.txt --verbose=1 +[ 30%] Linking CXX executable abba-baba +/usr/bin/cmake -E cmake_link_script CMakeFiles/abba-baba.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/permuteGPAT++.dir/link.d CMakeFiles/permuteGPAT++.dir/src/permuteGPAT++.cpp.o -o permuteGPAT++ -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hapLrt.dir/link.d CMakeFiles/hapLrt.dir/src/hapLrt.cpp.o -o hapLrt -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -make -f CMakeFiles/vcfhetcount.dir/build.make CMakeFiles/vcfhetcount.dir/build -[ 30%] Linking CXX executable normalize-iHS -/usr/bin/cmake -E cmake_link_script CMakeFiles/normalize-iHS.dir/link.txt --verbose=1 -make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 30%] Built target permuteGPAT++ +make -f CMakeFiles/vcfhetcount.dir/build.make CMakeFiles/vcfhetcount.dir/depend +make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfhetcount.dir/DependInfo.cmake "--color=" +[ 30%] Built target hapLrt make -f CMakeFiles/vcfhethomratio.dir/build.make CMakeFiles/vcfhethomratio.dir/depend -[ 30%] Building CXX object CMakeFiles/vcfhetcount.dir/src/vcfhetcount.cpp.o make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfhethomratio.dir/DependInfo.cmake "--color=" -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfhetcount.dir/src/vcfhetcount.cpp.o -MF CMakeFiles/vcfhetcount.dir/src/vcfhetcount.cpp.o.d -o CMakeFiles/vcfhetcount.dir/src/vcfhetcount.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfhetcount.cpp make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfhethomratio.dir/build.make CMakeFiles/vcfhethomratio.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 30%] Building CXX object CMakeFiles/vcfhethomratio.dir/src/vcfhethomratio.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfhethomratio.dir/src/vcfhethomratio.cpp.o -MF CMakeFiles/vcfhethomratio.dir/src/vcfhethomratio.cpp.o.d -o CMakeFiles/vcfhethomratio.dir/src/vcfhethomratio.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfhethomratio.cpp -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/pFst.dir/link.d CMakeFiles/pFst.dir/src/pFst.cpp.o -o pFst -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 30%] Built target pFst +make -f CMakeFiles/vcfhetcount.dir/build.make CMakeFiles/vcfhetcount.dir/build +make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 30%] Building CXX object CMakeFiles/vcfhetcount.dir/src/vcfhetcount.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfhetcount.dir/src/vcfhetcount.cpp.o -MF CMakeFiles/vcfhetcount.dir/src/vcfhetcount.cpp.o.d -o CMakeFiles/vcfhetcount.dir/src/vcfhetcount.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfhetcount.cpp +[ 30%] Linking CXX executable permuteSmooth +/usr/bin/cmake -E cmake_link_script CMakeFiles/permuteSmooth.dir/link.txt --verbose=1 +[ 30%] Linking CXX executable normalize-iHS +/usr/bin/cmake -E cmake_link_script CMakeFiles/normalize-iHS.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/pVst.dir/link.d CMakeFiles/pVst.dir/src/pVst.cpp.o -o pVst -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 30%] Built target pVst make -f CMakeFiles/vcffilter.dir/build.make CMakeFiles/vcffilter.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcffilter.dir/DependInfo.cmake "--color=" @@ -1390,9 +1426,9 @@ make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 31%] Building CXX object CMakeFiles/vcffilter.dir/src/vcffilter.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcffilter.dir/src/vcffilter.cpp.o -MF CMakeFiles/vcffilter.dir/src/vcffilter.cpp.o.d -o CMakeFiles/vcffilter.dir/src/vcffilter.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcffilter.cpp -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/hapLrt.dir/link.d CMakeFiles/hapLrt.dir/src/hapLrt.cpp.o -o hapLrt -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/pFst.dir/link.d CMakeFiles/pFst.dir/src/pFst.cpp.o -o pFst -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 31%] Built target hapLrt +[ 31%] Built target pFst make -f CMakeFiles/vcf2tsv.dir/build.make CMakeFiles/vcf2tsv.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcf2tsv.dir/DependInfo.cmake "--color=" @@ -1401,67 +1437,61 @@ make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 32%] Building CXX object CMakeFiles/vcf2tsv.dir/src/vcf2tsv.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcf2tsv.dir/src/vcf2tsv.cpp.o -MF CMakeFiles/vcf2tsv.dir/src/vcf2tsv.cpp.o.d -o CMakeFiles/vcf2tsv.dir/src/vcf2tsv.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcf2tsv.cpp -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/normalize-iHS.dir/link.d "CMakeFiles/normalize-iHS.dir/src/normalize-iHS.cpp.o" -o normalize-iHS -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/abba-baba.dir/link.d "CMakeFiles/abba-baba.dir/src/abba-baba.cpp.o" -o abba-baba -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +[ 32%] Linking CXX executable vcfaltcount +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfaltcount.dir/link.txt --verbose=1 +[ 33%] Linking CXX executable vcfnullgenofields +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfnullgenofields.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/plotHaps.dir/link.d CMakeFiles/plotHaps.dir/src/plotHaps.cpp.o -o plotHaps -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 32%] Built target normalize-iHS +[ 33%] Built target plotHaps make -f CMakeFiles/vcfgenotypes.dir/build.make CMakeFiles/vcfgenotypes.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfgenotypes.dir/DependInfo.cmake "--color=" -[ 32%] Built target abba-baba -make -f CMakeFiles/vcfannotategenotypes.dir/build.make CMakeFiles/vcfannotategenotypes.dir/depend -make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfannotategenotypes.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfgenotypes.dir/build.make CMakeFiles/vcfgenotypes.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 33%] Building CXX object CMakeFiles/vcfgenotypes.dir/src/vcfgenotypes.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfgenotypes.dir/src/vcfgenotypes.cpp.o -MF CMakeFiles/vcfgenotypes.dir/src/vcfgenotypes.cpp.o.d -o CMakeFiles/vcfgenotypes.dir/src/vcfgenotypes.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfgenotypes.cpp +[ 34%] Linking CXX executable vcfhethomratio +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfhethomratio.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/permuteSmooth.dir/link.d CMakeFiles/permuteSmooth.dir/src/permuteSmooth.cpp.o -o permuteSmooth -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 34%] Built target permuteSmooth +make -f CMakeFiles/vcfannotategenotypes.dir/build.make CMakeFiles/vcfannotategenotypes.dir/depend +make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfannotategenotypes.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfannotategenotypes.dir/build.make CMakeFiles/vcfannotategenotypes.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 32%] Linking CXX executable meltEHH -/usr/bin/cmake -E cmake_link_script CMakeFiles/meltEHH.dir/link.txt --verbose=1 -[ 32%] Building CXX object CMakeFiles/vcfgenotypes.dir/src/vcfgenotypes.cpp.o -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfgenotypes.dir/src/vcfgenotypes.cpp.o -MF CMakeFiles/vcfgenotypes.dir/src/vcfgenotypes.cpp.o.d -o CMakeFiles/vcfgenotypes.dir/src/vcfgenotypes.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfgenotypes.cpp -[ 33%] Building CXX object CMakeFiles/vcfannotategenotypes.dir/src/vcfannotategenotypes.cpp.o +[ 35%] Building CXX object CMakeFiles/vcfannotategenotypes.dir/src/vcfannotategenotypes.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfannotategenotypes.dir/src/vcfannotategenotypes.cpp.o -MF CMakeFiles/vcfannotategenotypes.dir/src/vcfannotategenotypes.cpp.o.d -o CMakeFiles/vcfannotategenotypes.dir/src/vcfannotategenotypes.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfannotategenotypes.cpp -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/permuteSmooth.dir/link.d CMakeFiles/permuteSmooth.dir/src/permuteSmooth.cpp.o -o permuteSmooth -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/abba-baba.dir/link.d "CMakeFiles/abba-baba.dir/src/abba-baba.cpp.o" -o abba-baba -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 33%] Built target permuteSmooth +[ 35%] Built target abba-baba make -f CMakeFiles/vcfcommonsamples.dir/build.make CMakeFiles/vcfcommonsamples.dir/depend -[ 33%] Linking CXX executable vcfaltcount -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfaltcount.dir/link.txt --verbose=1 make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfcommonsamples.dir/DependInfo.cmake "--color=" +[ 36%] Linking CXX executable vcfhetcount +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfhetcount.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfcommonsamples.dir/build.make CMakeFiles/vcfcommonsamples.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 34%] Building CXX object CMakeFiles/vcfcommonsamples.dir/src/vcfcommonsamples.cpp.o +[ 37%] Building CXX object CMakeFiles/vcfcommonsamples.dir/src/vcfcommonsamples.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfcommonsamples.dir/src/vcfcommonsamples.cpp.o -MF CMakeFiles/vcfcommonsamples.dir/src/vcfcommonsamples.cpp.o.d -o CMakeFiles/vcfcommonsamples.dir/src/vcfcommonsamples.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfcommonsamples.cpp -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/plotHaps.dir/link.d CMakeFiles/plotHaps.dir/src/plotHaps.cpp.o -o plotHaps -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/normalize-iHS.dir/link.d "CMakeFiles/normalize-iHS.dir/src/normalize-iHS.cpp.o" -o normalize-iHS -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 35%] Linking CXX executable vcfnullgenofields -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfnullgenofields.dir/link.txt --verbose=1 -[ 35%] Built target plotHaps +[ 37%] Built target normalize-iHS make -f CMakeFiles/vcfremovesamples.dir/build.make CMakeFiles/vcfremovesamples.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfremovesamples.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfremovesamples.dir/build.make CMakeFiles/vcfremovesamples.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 35%] Building CXX object CMakeFiles/vcfremovesamples.dir/src/vcfremovesamples.cpp.o +[ 37%] Building CXX object CMakeFiles/vcfremovesamples.dir/src/vcfremovesamples.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfremovesamples.dir/src/vcfremovesamples.cpp.o -MF CMakeFiles/vcfremovesamples.dir/src/vcfremovesamples.cpp.o.d -o CMakeFiles/vcfremovesamples.dir/src/vcfremovesamples.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfremovesamples.cpp -[ 36%] Linking CXX executable vcfhetcount -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfhetcount.dir/link.txt --verbose=1 -[ 37%] Linking CXX executable vcfhethomratio -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfhethomratio.dir/link.txt --verbose=1 -[ 37%] Linking CXX executable vcf2tsv -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcf2tsv.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfaltcount.dir/link.d CMakeFiles/vcfaltcount.dir/src/vcfaltcount.cpp.o -o vcfaltcount -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfld.dir/link.d CMakeFiles/vcfld.dir/src/vcfld.cpp.o -o vcfld -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 37%] Linking CXX executable vcffilter -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcffilter.dir/link.txt --verbose=1 -[ 37%] Built target vcfaltcount +[ 37%] Built target vcfld make -f CMakeFiles/vcfkeepsamples.dir/build.make CMakeFiles/vcfkeepsamples.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfkeepsamples.dir/DependInfo.cmake "--color=" @@ -1470,9 +1500,11 @@ make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 37%] Building CXX object CMakeFiles/vcfkeepsamples.dir/src/vcfkeepsamples.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfkeepsamples.dir/src/vcfkeepsamples.cpp.o -MF CMakeFiles/vcfkeepsamples.dir/src/vcfkeepsamples.cpp.o.d -o CMakeFiles/vcfkeepsamples.dir/src/vcfkeepsamples.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfkeepsamples.cpp -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfhetcount.dir/link.d CMakeFiles/vcfhetcount.dir/src/vcfhetcount.cpp.o -o vcfhetcount -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +[ 37%] Linking CXX executable meltEHH +/usr/bin/cmake -E cmake_link_script CMakeFiles/meltEHH.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfaltcount.dir/link.d CMakeFiles/vcfaltcount.dir/src/vcfaltcount.cpp.o -o vcfaltcount -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 37%] Built target vcfhetcount +[ 37%] Built target vcfaltcount make -f CMakeFiles/vcfsamplenames.dir/build.make CMakeFiles/vcfsamplenames.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfsamplenames.dir/DependInfo.cmake "--color=" @@ -1481,136 +1513,140 @@ make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 37%] Building CXX object CMakeFiles/vcfsamplenames.dir/src/vcfsamplenames.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfsamplenames.dir/src/vcfsamplenames.cpp.o -MF CMakeFiles/vcfsamplenames.dir/src/vcfsamplenames.cpp.o.d -o CMakeFiles/vcfsamplenames.dir/src/vcfsamplenames.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfsamplenames.cpp -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfld.dir/link.d CMakeFiles/vcfld.dir/src/vcfld.cpp.o -o vcfld -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +[ 37%] Linking CXX executable vcffilter +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcffilter.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfhethomratio.dir/link.d CMakeFiles/vcfhethomratio.dir/src/vcfhethomratio.cpp.o -o vcfhethomratio -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 38%] Linking CXX executable vcfgenotypes -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfgenotypes.dir/link.txt --verbose=1 -[ 38%] Built target vcfld +[ 37%] Built target vcfhethomratio make -f CMakeFiles/vcfgenotypecompare.dir/build.make CMakeFiles/vcfgenotypecompare.dir/depend +[ 37%] Linking CXX executable vcf2tsv +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcf2tsv.dir/link.txt --verbose=1 make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfgenotypecompare.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfgenotypecompare.dir/build.make CMakeFiles/vcfgenotypecompare.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 39%] Building CXX object CMakeFiles/vcfgenotypecompare.dir/src/vcfgenotypecompare.cpp.o +[ 38%] Building CXX object CMakeFiles/vcfgenotypecompare.dir/src/vcfgenotypecompare.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfgenotypecompare.dir/src/vcfgenotypecompare.cpp.o -MF CMakeFiles/vcfgenotypecompare.dir/src/vcfgenotypecompare.cpp.o.d -o CMakeFiles/vcfgenotypecompare.dir/src/vcfgenotypecompare.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfgenotypecompare.cpp -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfhethomratio.dir/link.d CMakeFiles/vcfhethomratio.dir/src/vcfhethomratio.cpp.o -o vcfhethomratio -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfnullgenofields.dir/link.d CMakeFiles/vcfnullgenofields.dir/src/vcfnullgenofields.cpp.o -o vcfnullgenofields -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 39%] Built target vcfhethomratio +[ 38%] Built target vcfnullgenofields +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfhetcount.dir/link.d CMakeFiles/vcfhetcount.dir/src/vcfhetcount.cpp.o -o vcfhetcount -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make -f CMakeFiles/vcffixup.dir/build.make CMakeFiles/vcffixup.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcffixup.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 38%] Built target vcfhetcount +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcffixup.dir/build.make CMakeFiles/vcffixup.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 40%] Building CXX object CMakeFiles/vcffixup.dir/src/vcffixup.cpp.o -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcffixup.dir/src/vcffixup.cpp.o -MF CMakeFiles/vcffixup.dir/src/vcffixup.cpp.o.d -o CMakeFiles/vcffixup.dir/src/vcffixup.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcffixup.cpp -[ 40%] Linking CXX executable vcfcommonsamples -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfcommonsamples.dir/link.txt --verbose=1 -[ 41%] Linking CXX executable vcfremovesamples -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfremovesamples.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfnullgenofields.dir/link.d CMakeFiles/vcfnullgenofields.dir/src/vcfnullgenofields.cpp.o -o vcfnullgenofields -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 41%] Built target vcfnullgenofields make -f CMakeFiles/vcfclassify.dir/build.make CMakeFiles/vcfclassify.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfclassify.dir/DependInfo.cmake "--color=" +[ 39%] Building CXX object CMakeFiles/vcffixup.dir/src/vcffixup.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcffixup.dir/src/vcffixup.cpp.o -MF CMakeFiles/vcffixup.dir/src/vcffixup.cpp.o.d -o CMakeFiles/vcffixup.dir/src/vcffixup.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcffixup.cpp make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfclassify.dir/build.make CMakeFiles/vcfclassify.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 42%] Building CXX object CMakeFiles/vcfclassify.dir/src/vcfclassify.cpp.o +[ 40%] Linking CXX executable vcfgenotypes +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfgenotypes.dir/link.txt --verbose=1 +[ 41%] Building CXX object CMakeFiles/vcfclassify.dir/src/vcfclassify.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfclassify.dir/src/vcfclassify.cpp.o -MF CMakeFiles/vcfclassify.dir/src/vcfclassify.cpp.o.d -o CMakeFiles/vcfclassify.dir/src/vcfclassify.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfclassify.cpp -[ 43%] Linking CXX executable vcfkeepsamples +[ 41%] Linking CXX executable vcfcommonsamples +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfcommonsamples.dir/link.txt --verbose=1 +[ 42%] Linking CXX executable vcfkeepsamples /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfkeepsamples.dir/link.txt --verbose=1 -[ 43%] Linking CXX executable vcfannotategenotypes +[ 43%] Linking CXX executable vcfremovesamples +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfremovesamples.dir/link.txt --verbose=1 +[ 44%] Linking CXX executable vcfsamplenames +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfsamplenames.dir/link.txt --verbose=1 +[ 44%] Linking CXX executable vcfannotategenotypes /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfannotategenotypes.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/meltEHH.dir/link.d CMakeFiles/meltEHH.dir/src/meltEHH.cpp.o -o meltEHH -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfcommonsamples.dir/link.d CMakeFiles/vcfcommonsamples.dir/src/vcfcommonsamples.cpp.o -o vcfcommonsamples -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 43%] Built target meltEHH +[ 44%] Built target vcfcommonsamples make -f CMakeFiles/vcfsamplediff.dir/build.make CMakeFiles/vcfsamplediff.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfsamplediff.dir/DependInfo.cmake "--color=" +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfsamplenames.dir/link.d CMakeFiles/vcfsamplenames.dir/src/vcfsamplenames.cpp.o -o vcfsamplenames -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfsamplediff.dir/build.make CMakeFiles/vcfsamplediff.dir/build +[ 44%] Built target vcfsamplenames make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 43%] Building CXX object CMakeFiles/vcfsamplediff.dir/src/vcfsamplediff.cpp.o -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfsamplediff.dir/src/vcfsamplediff.cpp.o -MF CMakeFiles/vcfsamplediff.dir/src/vcfsamplediff.cpp.o.d -o CMakeFiles/vcfsamplediff.dir/src/vcfsamplediff.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfsamplediff.cpp -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcf2tsv.dir/link.d CMakeFiles/vcf2tsv.dir/src/vcf2tsv.cpp.o -o vcf2tsv -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 43%] Built target vcf2tsv make -f CMakeFiles/vcfremoveaberrantgenotypes.dir/build.make CMakeFiles/vcfremoveaberrantgenotypes.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfremoveaberrantgenotypes.dir/DependInfo.cmake "--color=" -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfgenotypes.dir/link.d CMakeFiles/vcfgenotypes.dir/src/vcfgenotypes.cpp.o -o vcfgenotypes -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfkeepsamples.dir/link.d CMakeFiles/vcfkeepsamples.dir/src/vcfkeepsamples.cpp.o -o vcfkeepsamples -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfremoveaberrantgenotypes.dir/build.make CMakeFiles/vcfremoveaberrantgenotypes.dir/build -[ 44%] Linking CXX executable vcfsamplenames make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfsamplenames.dir/link.txt --verbose=1 -[ 44%] Built target vcfgenotypes +[ 44%] Building CXX object CMakeFiles/vcfsamplediff.dir/src/vcfsamplediff.cpp.o +[ 44%] Built target vcfkeepsamples make -f CMakeFiles/vcfrandom.dir/build.make CMakeFiles/vcfrandom.dir/depend -[ 44%] Building CXX object CMakeFiles/vcfremoveaberrantgenotypes.dir/src/vcfremoveaberrantgenotypes.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfsamplediff.dir/src/vcfsamplediff.cpp.o -MF CMakeFiles/vcfsamplediff.dir/src/vcfsamplediff.cpp.o.d -o CMakeFiles/vcfsamplediff.dir/src/vcfsamplediff.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfsamplediff.cpp make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfrandom.dir/DependInfo.cmake "--color=" +[ 44%] Building CXX object CMakeFiles/vcfremoveaberrantgenotypes.dir/src/vcfremoveaberrantgenotypes.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfremoveaberrantgenotypes.dir/src/vcfremoveaberrantgenotypes.cpp.o -MF CMakeFiles/vcfremoveaberrantgenotypes.dir/src/vcfremoveaberrantgenotypes.cpp.o.d -o CMakeFiles/vcfremoveaberrantgenotypes.dir/src/vcfremoveaberrantgenotypes.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfremoveaberrantgenotypes.cpp make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfrandom.dir/build.make CMakeFiles/vcfrandom.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfcommonsamples.dir/link.d CMakeFiles/vcfcommonsamples.dir/src/vcfcommonsamples.cpp.o -o vcfcommonsamples -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfgenotypes.dir/link.d CMakeFiles/vcfgenotypes.dir/src/vcfgenotypes.cpp.o -o vcfgenotypes -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 44%] Building CXX object CMakeFiles/vcfrandom.dir/src/vcfrandom.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfrandom.dir/src/vcfrandom.cpp.o -MF CMakeFiles/vcfrandom.dir/src/vcfrandom.cpp.o.d -o CMakeFiles/vcfrandom.dir/src/vcfrandom.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfrandom.cpp -[ 44%] Built target vcfcommonsamples +[ 44%] Built target vcfgenotypes make -f CMakeFiles/vcfflatten.dir/build.make CMakeFiles/vcfflatten.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfflatten.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfflatten.dir/build.make CMakeFiles/vcfflatten.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfremovesamples.dir/link.d CMakeFiles/vcfremovesamples.dir/src/vcfremovesamples.cpp.o -o vcfremovesamples -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 45%] Building CXX object CMakeFiles/vcfflatten.dir/src/vcfflatten.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfflatten.dir/src/vcfflatten.cpp.o -MF CMakeFiles/vcfflatten.dir/src/vcfflatten.cpp.o.d -o CMakeFiles/vcfflatten.dir/src/vcfflatten.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfflatten.cpp +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfremovesamples.dir/link.d CMakeFiles/vcfremovesamples.dir/src/vcfremovesamples.cpp.o -o vcfremovesamples -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 45%] Built target vcfremovesamples make -f CMakeFiles/vcfprimers.dir/build.make CMakeFiles/vcfprimers.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfprimers.dir/DependInfo.cmake "--color=" +[ 45%] Linking CXX executable vcfgenotypecompare +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfgenotypecompare.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfprimers.dir/build.make CMakeFiles/vcfprimers.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfkeepsamples.dir/link.d CMakeFiles/vcfkeepsamples.dir/src/vcfkeepsamples.cpp.o -o vcfkeepsamples -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 -[ 45%] Building CXX object CMakeFiles/vcfprimers.dir/src/vcfprimers.cpp.o +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcf2tsv.dir/link.d CMakeFiles/vcf2tsv.dir/src/vcf2tsv.cpp.o -o vcf2tsv -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfprimers.dir/src/vcfprimers.cpp.o -MF CMakeFiles/vcfprimers.dir/src/vcfprimers.cpp.o.d -o CMakeFiles/vcfprimers.dir/src/vcfprimers.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfprimers.cpp -[ 45%] Built target vcfkeepsamples +[ 45%] Built target vcf2tsv +[ 45%] Building CXX object CMakeFiles/vcfprimers.dir/src/vcfprimers.cpp.o make -f CMakeFiles/vcfnumalt.dir/build.make CMakeFiles/vcfnumalt.dir/depend +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfprimers.dir/src/vcfprimers.cpp.o -MF CMakeFiles/vcfprimers.dir/src/vcfprimers.cpp.o.d -o CMakeFiles/vcfprimers.dir/src/vcfprimers.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfprimers.cpp make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfnumalt.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfnumalt.dir/build.make CMakeFiles/vcfnumalt.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 45%] Linking CXX executable vcfclassify +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfclassify.dir/link.txt --verbose=1 [ 45%] Building CXX object CMakeFiles/vcfnumalt.dir/src/vcfnumalt.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfnumalt.dir/src/vcfnumalt.cpp.o -MF CMakeFiles/vcfnumalt.dir/src/vcfnumalt.cpp.o.d -o CMakeFiles/vcfnumalt.dir/src/vcfnumalt.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfnumalt.cpp -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfsamplenames.dir/link.d CMakeFiles/vcfsamplenames.dir/src/vcfsamplenames.cpp.o -o vcfsamplenames -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +[ 45%] Linking CXX executable vcffixup +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcffixup.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/meltEHH.dir/link.d CMakeFiles/meltEHH.dir/src/meltEHH.cpp.o -o meltEHH -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 45%] Built target vcfsamplenames +[ 45%] Built target meltEHH make -f CMakeFiles/vcfintersect.dir/build.make CMakeFiles/vcfintersect.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfintersect.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfintersect.dir/build.make CMakeFiles/vcfintersect.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 45%] Linking CXX executable vcffixup -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcffixup.dir/link.txt --verbose=1 [ 45%] Building CXX object CMakeFiles/vcfintersect.dir/src/vcfintersect.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfintersect.dir/src/vcfintersect.cpp.o -MF CMakeFiles/vcfintersect.dir/src/vcfintersect.cpp.o.d -o CMakeFiles/vcfintersect.dir/src/vcfintersect.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfintersect.cpp -[ 45%] Linking CXX executable vcfclassify -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfclassify.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcffilter.dir/link.d CMakeFiles/vcffilter.dir/src/vcffilter.cpp.o -o vcffilter -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 45%] Linking CXX executable vcfgenotypecompare -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfgenotypecompare.dir/link.txt --verbose=1 [ 45%] Built target vcffilter make -f CMakeFiles/vcfannotate.dir/build.make CMakeFiles/vcfannotate.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' @@ -1620,43 +1656,43 @@ make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 46%] Building CXX object CMakeFiles/vcfannotate.dir/src/vcfannotate.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfannotate.dir/src/vcfannotate.cpp.o -MF CMakeFiles/vcfannotate.dir/src/vcfannotate.cpp.o.d -o CMakeFiles/vcfannotate.dir/src/vcfannotate.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfannotate.cpp -[ 47%] Linking CXX executable vcfprimers -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfprimers.dir/link.txt --verbose=1 -[ 48%] Linking CXX executable vcfsamplediff -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfsamplediff.dir/link.txt --verbose=1 -[ 49%] Linking CXX executable vcfrandom -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfrandom.dir/link.txt --verbose=1 -[ 50%] Linking CXX executable vcfremoveaberrantgenotypes -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfremoveaberrantgenotypes.dir/link.txt --verbose=1 -[ 51%] Linking CXX executable vcfnumalt -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfnumalt.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfclassify.dir/link.d CMakeFiles/vcfclassify.dir/src/vcfclassify.cpp.o -o vcfclassify -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 51%] Built target vcfclassify +[ 46%] Built target vcfclassify make -f CMakeFiles/vcfoverlay.dir/build.make CMakeFiles/vcfoverlay.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfoverlay.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfoverlay.dir/build.make CMakeFiles/vcfoverlay.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 51%] Building CXX object CMakeFiles/vcfoverlay.dir/src/vcfoverlay.cpp.o +[ 46%] Building CXX object CMakeFiles/vcfoverlay.dir/src/vcfoverlay.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfoverlay.dir/src/vcfoverlay.cpp.o -MF CMakeFiles/vcfoverlay.dir/src/vcfoverlay.cpp.o.d -o CMakeFiles/vcfoverlay.dir/src/vcfoverlay.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfoverlay.cpp -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfprimers.dir/link.d CMakeFiles/vcfprimers.dir/src/vcfprimers.cpp.o -o vcfprimers -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +[ 47%] Linking CXX executable vcfremoveaberrantgenotypes +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfremoveaberrantgenotypes.dir/link.txt --verbose=1 +[ 48%] Linking CXX executable vcfrandom +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfrandom.dir/link.txt --verbose=1 +[ 49%] Linking CXX executable vcfsamplediff +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfsamplediff.dir/link.txt --verbose=1 +[ 50%] Linking CXX executable vcfprimers +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfprimers.dir/link.txt --verbose=1 +[ 51%] Linking CXX executable vcfnumalt +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfnumalt.dir/link.txt --verbose=1 +[ 51%] Linking CXX executable vcfflatten +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfflatten.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcffixup.dir/link.d CMakeFiles/vcffixup.dir/src/vcffixup.cpp.o -o vcffixup -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 51%] Built target vcfprimers +[ 51%] Built target vcffixup make -f CMakeFiles/vcfaddinfo.dir/build.make CMakeFiles/vcfaddinfo.dir/depend -[ 51%] Linking CXX executable vcfflatten make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfaddinfo.dir/DependInfo.cmake "--color=" -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfflatten.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfaddinfo.dir/build.make CMakeFiles/vcfaddinfo.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 52%] Building CXX object CMakeFiles/vcfaddinfo.dir/src/vcfaddinfo.cpp.o -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcffixup.dir/link.d CMakeFiles/vcffixup.dir/src/vcffixup.cpp.o -o vcffixup -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfaddinfo.dir/src/vcfaddinfo.cpp.o -MF CMakeFiles/vcfaddinfo.dir/src/vcfaddinfo.cpp.o.d -o CMakeFiles/vcfaddinfo.dir/src/vcfaddinfo.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfaddinfo.cpp -[ 52%] Built target vcffixup +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfprimers.dir/link.d CMakeFiles/vcfprimers.dir/src/vcfprimers.cpp.o -o vcfprimers -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 52%] Built target vcfprimers make -f CMakeFiles/vcfkeepinfo.dir/build.make CMakeFiles/vcfkeepinfo.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfkeepinfo.dir/DependInfo.cmake "--color=" @@ -1665,9 +1701,9 @@ make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 52%] Building CXX object CMakeFiles/vcfkeepinfo.dir/src/vcfkeepinfo.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfkeepinfo.dir/src/vcfkeepinfo.cpp.o -MF CMakeFiles/vcfkeepinfo.dir/src/vcfkeepinfo.cpp.o.d -o CMakeFiles/vcfkeepinfo.dir/src/vcfkeepinfo.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfkeepinfo.cpp -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfannotategenotypes.dir/link.d CMakeFiles/vcfannotategenotypes.dir/src/vcfannotategenotypes.cpp.o -o vcfannotategenotypes -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfremoveaberrantgenotypes.dir/link.d CMakeFiles/vcfremoveaberrantgenotypes.dir/src/vcfremoveaberrantgenotypes.cpp.o -o vcfremoveaberrantgenotypes -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 52%] Built target vcfannotategenotypes +[ 52%] Built target vcfremoveaberrantgenotypes make -f CMakeFiles/vcfkeepgeno.dir/build.make CMakeFiles/vcfkeepgeno.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfkeepgeno.dir/DependInfo.cmake "--color=" @@ -1676,269 +1712,271 @@ make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 52%] Building CXX object CMakeFiles/vcfkeepgeno.dir/src/vcfkeepgeno.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfkeepgeno.dir/src/vcfkeepgeno.cpp.o -MF CMakeFiles/vcfkeepgeno.dir/src/vcfkeepgeno.cpp.o.d -o CMakeFiles/vcfkeepgeno.dir/src/vcfkeepgeno.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfkeepgeno.cpp -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfnumalt.dir/link.d CMakeFiles/vcfnumalt.dir/src/vcfnumalt.cpp.o -o vcfnumalt -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfannotategenotypes.dir/link.d CMakeFiles/vcfannotategenotypes.dir/src/vcfannotategenotypes.cpp.o -o vcfannotategenotypes -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 52%] Built target vcfnumalt +[ 52%] Built target vcfannotategenotypes make -f CMakeFiles/vcfafpath.dir/build.make CMakeFiles/vcfafpath.dir/depend -[ 52%] Linking CXX executable vcfannotate make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfafpath.dir/DependInfo.cmake "--color=" -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfannotate.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfafpath.dir/build.make CMakeFiles/vcfafpath.dir/build -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfremoveaberrantgenotypes.dir/link.d CMakeFiles/vcfremoveaberrantgenotypes.dir/src/vcfremoveaberrantgenotypes.cpp.o -o vcfremoveaberrantgenotypes -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 53%] Building CXX object CMakeFiles/vcfafpath.dir/src/vcfafpath.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfafpath.dir/src/vcfafpath.cpp.o -MF CMakeFiles/vcfafpath.dir/src/vcfafpath.cpp.o.d -o CMakeFiles/vcfafpath.dir/src/vcfafpath.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfafpath.cpp -[ 53%] Built target vcfremoveaberrantgenotypes -make -f CMakeFiles/vcfcountalleles.dir/build.make CMakeFiles/vcfcountalleles.dir/depend -make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfcountalleles.dir/DependInfo.cmake "--color=" +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfnumalt.dir/link.d CMakeFiles/vcfnumalt.dir/src/vcfnumalt.cpp.o -o vcfnumalt -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -make -f CMakeFiles/vcfcountalleles.dir/build.make CMakeFiles/vcfcountalleles.dir/build -make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 54%] Building CXX object CMakeFiles/vcfcountalleles.dir/src/vcfcountalleles.cpp.o -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfcountalleles.dir/src/vcfcountalleles.cpp.o -MF CMakeFiles/vcfcountalleles.dir/src/vcfcountalleles.cpp.o.d -o CMakeFiles/vcfcountalleles.dir/src/vcfcountalleles.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfcountalleles.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfsamplediff.dir/link.d CMakeFiles/vcfsamplediff.dir/src/vcfsamplediff.cpp.o -o vcfsamplediff -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 54%] Built target vcfsamplediff +[ 53%] Built target vcfnumalt +make -f CMakeFiles/vcfcountalleles.dir/build.make CMakeFiles/vcfcountalleles.dir/depend +make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfcountalleles.dir/DependInfo.cmake "--color=" +[ 53%] Built target vcfsamplediff +[ 53%] Linking CXX executable vcfannotate make -f CMakeFiles/vcflength.dir/build.make CMakeFiles/vcflength.dir/depend +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfannotate.dir/link.txt --verbose=1 +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcflength.dir/DependInfo.cmake "--color=" -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfrandom.dir/link.d CMakeFiles/vcfrandom.dir/src/vcfrandom.cpp.o -o vcfrandom -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +make -f CMakeFiles/vcfcountalleles.dir/build.make CMakeFiles/vcfcountalleles.dir/build +make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcflength.dir/build.make CMakeFiles/vcflength.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 54%] Built target vcfrandom +[ 54%] Linking CXX executable vcfoverlay +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfoverlay.dir/link.txt --verbose=1 +[ 54%] Building CXX object CMakeFiles/vcflength.dir/src/vcflength.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcflength.dir/src/vcflength.cpp.o -MF CMakeFiles/vcflength.dir/src/vcflength.cpp.o.d -o CMakeFiles/vcflength.dir/src/vcflength.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcflength.cpp +[ 55%] Building CXX object CMakeFiles/vcfcountalleles.dir/src/vcfcountalleles.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfcountalleles.dir/src/vcfcountalleles.cpp.o -MF CMakeFiles/vcfcountalleles.dir/src/vcfcountalleles.cpp.o.d -o CMakeFiles/vcfcountalleles.dir/src/vcfcountalleles.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfcountalleles.cpp +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfgenotypecompare.dir/link.d CMakeFiles/vcfgenotypecompare.dir/src/vcfgenotypecompare.cpp.o -o vcfgenotypecompare -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 55%] Built target vcfgenotypecompare make -f CMakeFiles/vcfdistance.dir/build.make CMakeFiles/vcfdistance.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfdistance.dir/DependInfo.cmake "--color=" -[ 54%] Building CXX object CMakeFiles/vcflength.dir/src/vcflength.cpp.o -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcflength.dir/src/vcflength.cpp.o -MF CMakeFiles/vcflength.dir/src/vcflength.cpp.o.d -o CMakeFiles/vcflength.dir/src/vcflength.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcflength.cpp make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfdistance.dir/build.make CMakeFiles/vcfdistance.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 55%] Building CXX object CMakeFiles/vcfdistance.dir/src/vcfdistance.cpp.o +[ 56%] Building CXX object CMakeFiles/vcfdistance.dir/src/vcfdistance.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfdistance.dir/src/vcfdistance.cpp.o -MF CMakeFiles/vcfdistance.dir/src/vcfdistance.cpp.o.d -o CMakeFiles/vcfdistance.dir/src/vcfdistance.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfdistance.cpp -[ 55%] Linking CXX executable vcfaddinfo -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfaddinfo.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfgenotypecompare.dir/link.d CMakeFiles/vcfgenotypecompare.dir/src/vcfgenotypecompare.cpp.o -o vcfgenotypecompare -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfrandom.dir/link.d CMakeFiles/vcfrandom.dir/src/vcfrandom.cpp.o -o vcfrandom -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 55%] Built target vcfgenotypecompare +[ 56%] Built target vcfrandom make -f CMakeFiles/vcfrandomsample.dir/build.make CMakeFiles/vcfrandomsample.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfrandomsample.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfrandomsample.dir/build.make CMakeFiles/vcfrandomsample.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 56%] Linking CXX executable vcfintersect -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfintersect.dir/link.txt --verbose=1 [ 56%] Building CXX object CMakeFiles/vcfrandomsample.dir/src/vcfrandomsample.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfrandomsample.dir/src/vcfrandomsample.cpp.o -MF CMakeFiles/vcfrandomsample.dir/src/vcfrandomsample.cpp.o.d -o CMakeFiles/vcfrandomsample.dir/src/vcfrandomsample.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfrandomsample.cpp +[ 57%] Linking CXX executable vcfintersect +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfintersect.dir/link.txt --verbose=1 +[ 57%] Linking CXX executable vcfaddinfo +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfaddinfo.dir/link.txt --verbose=1 +[ 58%] Linking CXX executable vcfkeepinfo +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfkeepinfo.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfflatten.dir/link.d CMakeFiles/vcfflatten.dir/src/vcfflatten.cpp.o -o vcfflatten -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 56%] Built target vcfflatten +[ 58%] Built target vcfflatten make -f CMakeFiles/vcfentropy.dir/build.make CMakeFiles/vcfentropy.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfentropy.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfentropy.dir/build.make CMakeFiles/vcfentropy.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 57%] Building CXX object CMakeFiles/vcfentropy.dir/src/vcfentropy.cpp.o +[ 59%] Building CXX object CMakeFiles/vcfentropy.dir/src/vcfentropy.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfentropy.dir/src/vcfentropy.cpp.o -MF CMakeFiles/vcfentropy.dir/src/vcfentropy.cpp.o.d -o CMakeFiles/vcfentropy.dir/src/vcfentropy.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfentropy.cpp -[ 58%] Linking CXX executable vcfoverlay -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfoverlay.dir/link.txt --verbose=1 -[ 59%] Linking CXX executable vcfkeepinfo -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfkeepinfo.dir/link.txt --verbose=1 [ 60%] Linking CXX executable vcfkeepgeno /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfkeepgeno.dir/link.txt --verbose=1 -[ 60%] Linking CXX executable vcfcountalleles -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfcountalleles.dir/link.txt --verbose=1 [ 60%] Linking CXX executable vcfafpath /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfafpath.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfkeepinfo.dir/link.d CMakeFiles/vcfkeepinfo.dir/src/vcfkeepinfo.cpp.o -o vcfkeepinfo -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +[ 60%] Linking CXX executable vcfcountalleles +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfcountalleles.dir/link.txt --verbose=1 +[ 61%] Linking CXX executable vcflength +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcflength.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfoverlay.dir/link.d CMakeFiles/vcfoverlay.dir/src/vcfoverlay.cpp.o -o vcfoverlay -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 60%] Built target vcfkeepinfo +[ 61%] Built target vcfoverlay make -f CMakeFiles/vcfglxgt.dir/build.make CMakeFiles/vcfglxgt.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfglxgt.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfglxgt.dir/build.make CMakeFiles/vcfglxgt.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 61%] Linking CXX executable vcfdistance +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfdistance.dir/link.txt --verbose=1 +[ 61%] Building CXX object CMakeFiles/vcfglxgt.dir/src/vcfglxgt.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfglxgt.dir/src/vcfglxgt.cpp.o -MF CMakeFiles/vcfglxgt.dir/src/vcfglxgt.cpp.o.d -o CMakeFiles/vcfglxgt.dir/src/vcfglxgt.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfglxgt.cpp /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfaddinfo.dir/link.d CMakeFiles/vcfaddinfo.dir/src/vcfaddinfo.cpp.o -o vcfaddinfo -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 60%] Building CXX object CMakeFiles/vcfglxgt.dir/src/vcfglxgt.cpp.o -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfglxgt.dir/src/vcfglxgt.cpp.o -MF CMakeFiles/vcfglxgt.dir/src/vcfglxgt.cpp.o.d -o CMakeFiles/vcfglxgt.dir/src/vcfglxgt.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfglxgt.cpp -[ 60%] Built target vcfaddinfo +[ 61%] Built target vcfaddinfo make -f CMakeFiles/vcfcheck.dir/build.make CMakeFiles/vcfcheck.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfcheck.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfcheck.dir/build.make CMakeFiles/vcfcheck.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 61%] Building CXX object CMakeFiles/vcfcheck.dir/src/vcfcheck.cpp.o -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfcheck.dir/src/vcfcheck.cpp.o -MF CMakeFiles/vcfcheck.dir/src/vcfcheck.cpp.o.d -o CMakeFiles/vcfcheck.dir/src/vcfcheck.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfcheck.cpp -[ 61%] Linking CXX executable vcfdistance -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfdistance.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfkeepgeno.dir/link.d CMakeFiles/vcfkeepgeno.dir/src/vcfkeepgeno.cpp.o -o vcfkeepgeno -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfkeepinfo.dir/link.d CMakeFiles/vcfkeepinfo.dir/src/vcfkeepinfo.cpp.o -o vcfkeepinfo -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 61%] Built target vcfkeepgeno +[ 62%] Building CXX object CMakeFiles/vcfcheck.dir/src/vcfcheck.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfcheck.dir/src/vcfcheck.cpp.o -MF CMakeFiles/vcfcheck.dir/src/vcfcheck.cpp.o.d -o CMakeFiles/vcfcheck.dir/src/vcfcheck.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfcheck.cpp +[ 62%] Built target vcfkeepinfo make -f CMakeFiles/vcfstreamsort.dir/build.make CMakeFiles/vcfstreamsort.dir/depend -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfcountalleles.dir/link.d CMakeFiles/vcfcountalleles.dir/src/vcfcountalleles.cpp.o -o vcfcountalleles -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfstreamsort.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfstreamsort.dir/build.make CMakeFiles/vcfstreamsort.dir/build -[ 61%] Built target vcfcountalleles make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 62%] Building CXX object CMakeFiles/vcfstreamsort.dir/src/vcfstreamsort.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfstreamsort.dir/src/vcfstreamsort.cpp.o -MF CMakeFiles/vcfstreamsort.dir/src/vcfstreamsort.cpp.o.d -o CMakeFiles/vcfstreamsort.dir/src/vcfstreamsort.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfstreamsort.cpp +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfcountalleles.dir/link.d CMakeFiles/vcfcountalleles.dir/src/vcfcountalleles.cpp.o -o vcfcountalleles -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 62%] Built target vcfcountalleles make -f CMakeFiles/vcfuniq.dir/build.make CMakeFiles/vcfuniq.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfuniq.dir/DependInfo.cmake "--color=" -[ 61%] Building CXX object CMakeFiles/vcfstreamsort.dir/src/vcfstreamsort.cpp.o -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfstreamsort.dir/src/vcfstreamsort.cpp.o -MF CMakeFiles/vcfstreamsort.dir/src/vcfstreamsort.cpp.o.d -o CMakeFiles/vcfstreamsort.dir/src/vcfstreamsort.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfstreamsort.cpp +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfkeepgeno.dir/link.d CMakeFiles/vcfkeepgeno.dir/src/vcfkeepgeno.cpp.o -o vcfkeepgeno -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfuniq.dir/build.make CMakeFiles/vcfuniq.dir/build +[ 62%] Built target vcfkeepgeno make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfannotate.dir/link.d CMakeFiles/vcfannotate.dir/src/vcfannotate.cpp.o -o vcfannotate -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 61%] Building CXX object CMakeFiles/vcfuniq.dir/src/vcfuniq.cpp.o -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfuniq.dir/src/vcfuniq.cpp.o -MF CMakeFiles/vcfuniq.dir/src/vcfuniq.cpp.o.d -o CMakeFiles/vcfuniq.dir/src/vcfuniq.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfuniq.cpp -[ 61%] Built target vcfannotate make -f CMakeFiles/vcfuniqalleles.dir/build.make CMakeFiles/vcfuniqalleles.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfuniqalleles.dir/DependInfo.cmake "--color=" +[ 62%] Building CXX object CMakeFiles/vcfuniq.dir/src/vcfuniq.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfuniq.dir/src/vcfuniq.cpp.o -MF CMakeFiles/vcfuniq.dir/src/vcfuniq.cpp.o.d -o CMakeFiles/vcfuniq.dir/src/vcfuniq.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfuniq.cpp make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfuniqalleles.dir/build.make CMakeFiles/vcfuniqalleles.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 61%] Building CXX object CMakeFiles/vcfuniqalleles.dir/src/vcfuniqalleles.cpp.o -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfuniqalleles.dir/src/vcfuniqalleles.cpp.o -MF CMakeFiles/vcfuniqalleles.dir/src/vcfuniqalleles.cpp.o.d -o CMakeFiles/vcfuniqalleles.dir/src/vcfuniqalleles.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfuniqalleles.cpp -[ 62%] Linking CXX executable vcfrandomsample +[ 63%] Linking CXX executable vcfrandomsample /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfrandomsample.dir/link.txt --verbose=1 -[ 62%] Linking CXX executable vcfentropy -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfentropy.dir/link.txt --verbose=1 -[ 63%] Linking CXX executable vcflength -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcflength.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfdistance.dir/link.d CMakeFiles/vcfdistance.dir/src/vcfdistance.cpp.o -o vcfdistance -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 63%] Built target vcfdistance -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfoverlay.dir/link.d CMakeFiles/vcfoverlay.dir/src/vcfoverlay.cpp.o -o vcfoverlay -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +[ 63%] Building CXX object CMakeFiles/vcfuniqalleles.dir/src/vcfuniqalleles.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfuniqalleles.dir/src/vcfuniqalleles.cpp.o -MF CMakeFiles/vcfuniqalleles.dir/src/vcfuniqalleles.cpp.o.d -o CMakeFiles/vcfuniqalleles.dir/src/vcfuniqalleles.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfuniqalleles.cpp +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfafpath.dir/link.d CMakeFiles/vcfafpath.dir/src/vcfafpath.cpp.o -o vcfafpath -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 63%] Built target vcfafpath make -f CMakeFiles/vcfremap.dir/build.make CMakeFiles/vcfremap.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfremap.dir/DependInfo.cmake "--color=" -[ 63%] Built target vcfoverlay -make -f CMakeFiles/vcf2fasta.dir/build.make CMakeFiles/vcf2fasta.dir/depend -make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcf2fasta.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfremap.dir/build.make CMakeFiles/vcfremap.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 63%] Building CXX object CMakeFiles/vcfremap.dir/src/vcfremap.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfremap.dir/src/vcfremap.cpp.o -MF CMakeFiles/vcfremap.dir/src/vcfremap.cpp.o.d -o CMakeFiles/vcfremap.dir/src/vcfremap.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfremap.cpp +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcflength.dir/link.d CMakeFiles/vcflength.dir/src/vcflength.cpp.o -o vcflength -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 63%] Built target vcflength +make -f CMakeFiles/vcf2fasta.dir/build.make CMakeFiles/vcf2fasta.dir/depend +make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcf2fasta.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcf2fasta.dir/build.make CMakeFiles/vcf2fasta.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 64%] Building CXX object CMakeFiles/vcf2fasta.dir/src/vcf2fasta.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcf2fasta.dir/src/vcf2fasta.cpp.o -MF CMakeFiles/vcf2fasta.dir/src/vcf2fasta.cpp.o.d -o CMakeFiles/vcf2fasta.dir/src/vcf2fasta.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcf2fasta.cpp -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfafpath.dir/link.d CMakeFiles/vcfafpath.dir/src/vcfafpath.cpp.o -o vcfafpath -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +[ 64%] Linking CXX executable vcfentropy +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfentropy.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfdistance.dir/link.d CMakeFiles/vcfdistance.dir/src/vcfdistance.cpp.o -o vcfdistance -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 64%] Built target vcfafpath +[ 64%] Built target vcfdistance make -f CMakeFiles/vcfsitesummarize.dir/build.make CMakeFiles/vcfsitesummarize.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfsitesummarize.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfsitesummarize.dir/build.make CMakeFiles/vcfsitesummarize.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfannotate.dir/link.d CMakeFiles/vcfannotate.dir/src/vcfannotate.cpp.o -o vcfannotate -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 64%] Building CXX object CMakeFiles/vcfsitesummarize.dir/src/vcfsitesummarize.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfsitesummarize.dir/src/vcfsitesummarize.cpp.o -MF CMakeFiles/vcfsitesummarize.dir/src/vcfsitesummarize.cpp.o.d -o CMakeFiles/vcfsitesummarize.dir/src/vcfsitesummarize.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfsitesummarize.cpp -[ 65%] Linking CXX executable vcfglxgt -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfglxgt.dir/link.txt --verbose=1 -[ 65%] Linking CXX executable vcfcheck -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfcheck.dir/link.txt --verbose=1 -[ 66%] Linking CXX executable vcfuniqalleles -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfuniqalleles.dir/link.txt --verbose=1 -[ 67%] Linking CXX executable vcfuniq -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfuniq.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfrandomsample.dir/link.d CMakeFiles/vcfrandomsample.dir/src/vcfrandomsample.cpp.o -o vcfrandomsample -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 67%] Built target vcfrandomsample +[ 64%] Built target vcfannotate make -f CMakeFiles/vcfbreakmulti.dir/build.make CMakeFiles/vcfbreakmulti.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfbreakmulti.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfbreakmulti.dir/build.make CMakeFiles/vcfbreakmulti.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 68%] Building CXX object CMakeFiles/vcfbreakmulti.dir/src/vcfbreakmulti.cpp.o +[ 65%] Building CXX object CMakeFiles/vcfbreakmulti.dir/src/vcfbreakmulti.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfbreakmulti.dir/src/vcfbreakmulti.cpp.o -MF CMakeFiles/vcfbreakmulti.dir/src/vcfbreakmulti.cpp.o.d -o CMakeFiles/vcfbreakmulti.dir/src/vcfbreakmulti.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfbreakmulti.cpp -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcflength.dir/link.d CMakeFiles/vcflength.dir/src/vcflength.cpp.o -o vcflength -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +[ 65%] Linking CXX executable vcfcheck +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfcheck.dir/link.txt --verbose=1 +[ 66%] Linking CXX executable vcfglxgt +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfglxgt.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfrandomsample.dir/link.d CMakeFiles/vcfrandomsample.dir/src/vcfrandomsample.cpp.o -o vcfrandomsample -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 68%] Built target vcflength +[ 67%] Linking CXX executable vcfuniq +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfuniq.dir/link.txt --verbose=1 +[ 67%] Built target vcfrandomsample make -f CMakeFiles/vcfevenregions.dir/build.make CMakeFiles/vcfevenregions.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfevenregions.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfevenregions.dir/build.make CMakeFiles/vcfevenregions.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 69%] Building CXX object CMakeFiles/vcfevenregions.dir/src/vcfevenregions.cpp.o +[ 68%] Building CXX object CMakeFiles/vcfevenregions.dir/src/vcfevenregions.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfevenregions.dir/src/vcfevenregions.cpp.o -MF CMakeFiles/vcfevenregions.dir/src/vcfevenregions.cpp.o.d -o CMakeFiles/vcfevenregions.dir/src/vcfevenregions.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfevenregions.cpp -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfentropy.dir/link.d CMakeFiles/vcfentropy.dir/src/vcfentropy.cpp.o -o vcfentropy -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 69%] Linking CXX executable vcfuniqalleles +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfuniqalleles.dir/link.txt --verbose=1 +[ 70%] Linking CXX executable vcfstreamsort +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfstreamsort.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfcheck.dir/link.d CMakeFiles/vcfcheck.dir/src/vcfcheck.cpp.o -o vcfcheck -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 69%] Built target vcfentropy +[ 70%] Built target vcfcheck make -f CMakeFiles/vcfcat.dir/build.make CMakeFiles/vcfcat.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfcat.dir/DependInfo.cmake "--color=" -[ 69%] Built target vcfcheck -make -f CMakeFiles/vcfgenosummarize.dir/build.make CMakeFiles/vcfgenosummarize.dir/depend -make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfgenosummarize.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfcat.dir/build.make CMakeFiles/vcfcat.dir/build +make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 71%] Building CXX object CMakeFiles/vcfcat.dir/src/vcfcat.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfcat.dir/src/vcfcat.cpp.o -MF CMakeFiles/vcfcat.dir/src/vcfcat.cpp.o.d -o CMakeFiles/vcfcat.dir/src/vcfcat.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfcat.cpp +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfentropy.dir/link.d CMakeFiles/vcfentropy.dir/src/vcfentropy.cpp.o -o vcfentropy -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 71%] Built target vcfentropy +make -f CMakeFiles/vcfgenosummarize.dir/build.make CMakeFiles/vcfgenosummarize.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfgenosummarize.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfgenosummarize.dir/build.make CMakeFiles/vcfgenosummarize.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 70%] Building CXX object CMakeFiles/vcfcat.dir/src/vcfcat.cpp.o -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfcat.dir/src/vcfcat.cpp.o -MF CMakeFiles/vcfcat.dir/src/vcfcat.cpp.o.d -o CMakeFiles/vcfcat.dir/src/vcfcat.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfcat.cpp -[ 71%] Building CXX object CMakeFiles/vcfgenosummarize.dir/src/vcfgenosummarize.cpp.o +[ 72%] Building CXX object CMakeFiles/vcfgenosummarize.dir/src/vcfgenosummarize.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfgenosummarize.dir/src/vcfgenosummarize.cpp.o -MF CMakeFiles/vcfgenosummarize.dir/src/vcfgenosummarize.cpp.o.d -o CMakeFiles/vcfgenosummarize.dir/src/vcfgenosummarize.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfgenosummarize.cpp -[ 72%] Linking CXX executable vcfsitesummarize -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfsitesummarize.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfuniq.dir/link.d CMakeFiles/vcfuniq.dir/src/vcfuniq.cpp.o -o vcfuniq -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 73%] Linking CXX executable vcfstreamsort -[ 73%] Built target vcfuniq +[ 72%] Built target vcfuniq make -f CMakeFiles/vcfgenosamplenames.dir/build.make CMakeFiles/vcfgenosamplenames.dir/depend -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfstreamsort.dir/link.txt --verbose=1 make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfgenosamplenames.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfgenosamplenames.dir/build.make CMakeFiles/vcfgenosamplenames.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 74%] Building CXX object CMakeFiles/vcfgenosamplenames.dir/src/vcfgenosamplenames.cpp.o +[ 73%] Building CXX object CMakeFiles/vcfgenosamplenames.dir/src/vcfgenosamplenames.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfgenosamplenames.dir/src/vcfgenosamplenames.cpp.o -MF CMakeFiles/vcfgenosamplenames.dir/src/vcfgenosamplenames.cpp.o.d -o CMakeFiles/vcfgenosamplenames.dir/src/vcfgenosamplenames.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfgenosamplenames.cpp -[ 75%] Linking CXX executable vcfremap -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfremap.dir/link.txt --verbose=1 -[ 75%] Linking CXX executable vcf2fasta -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfglxgt.dir/link.d CMakeFiles/vcfglxgt.dir/src/vcfglxgt.cpp.o -o vcfglxgt -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 73%] Linking CXX executable vcf2fasta /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf2fasta.dir/link.txt --verbose=1 -[ 75%] Built target vcfglxgt +[ 74%] Linking CXX executable vcfsitesummarize +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfsitesummarize.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfuniqalleles.dir/link.d CMakeFiles/vcfuniqalleles.dir/src/vcfuniqalleles.cpp.o -o vcfuniqalleles -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 74%] Built target vcfuniqalleles make -f CMakeFiles/vcfgeno2haplo.dir/build.make CMakeFiles/vcfgeno2haplo.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfgeno2haplo.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfgeno2haplo.dir/build.make CMakeFiles/vcfgeno2haplo.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfuniqalleles.dir/link.d CMakeFiles/vcfuniqalleles.dir/src/vcfuniqalleles.cpp.o -o vcfuniqalleles -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 -[ 76%] Building CXX object CMakeFiles/vcfgeno2haplo.dir/src/vcfgeno2haplo.cpp.o -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 75%] Building CXX object CMakeFiles/vcfgeno2haplo.dir/src/vcfgeno2haplo.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfgeno2haplo.dir/src/vcfgeno2haplo.cpp.o -MF CMakeFiles/vcfgeno2haplo.dir/src/vcfgeno2haplo.cpp.o.d -o CMakeFiles/vcfgeno2haplo.dir/src/vcfgeno2haplo.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfgeno2haplo.cpp -[ 76%] Built target vcfuniqalleles +[ 76%] Linking CXX executable vcfremap +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfremap.dir/link.txt --verbose=1 +[ 76%] Linking CXX executable vcfbreakmulti +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfbreakmulti.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfglxgt.dir/link.d CMakeFiles/vcfglxgt.dir/src/vcfglxgt.cpp.o -o vcfglxgt -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 76%] Built target vcfglxgt make -f CMakeFiles/vcfleftalign.dir/build.make CMakeFiles/vcfleftalign.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfleftalign.dir/DependInfo.cmake "--color=" @@ -1947,125 +1985,123 @@ make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 76%] Building CXX object CMakeFiles/vcfleftalign.dir/src/vcfleftalign.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfleftalign.dir/src/vcfleftalign.cpp.o -MF CMakeFiles/vcfleftalign.dir/src/vcfleftalign.cpp.o.d -o CMakeFiles/vcfleftalign.dir/src/vcfleftalign.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfleftalign.cpp -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfsitesummarize.dir/link.d CMakeFiles/vcfsitesummarize.dir/src/vcfsitesummarize.cpp.o -o vcfsitesummarize -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +[ 76%] Linking CXX executable vcfevenregions +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfevenregions.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfintersect.dir/link.d CMakeFiles/vcfintersect.dir/src/vcfintersect.cpp.o -o vcfintersect -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 76%] Built target vcfsitesummarize +[ 76%] Built target vcfintersect make -f CMakeFiles/vcfcombine.dir/build.make CMakeFiles/vcfcombine.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfcombine.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfcombine.dir/build.make CMakeFiles/vcfcombine.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 76%] Linking CXX executable vcfcat +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfcat.dir/link.txt --verbose=1 [ 77%] Building CXX object CMakeFiles/vcfcombine.dir/src/vcfcombine.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfcombine.dir/src/vcfcombine.cpp.o -MF CMakeFiles/vcfcombine.dir/src/vcfcombine.cpp.o.d -o CMakeFiles/vcfcombine.dir/src/vcfcombine.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfcombine.cpp -[ 77%] Linking CXX executable vcfbreakmulti -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfbreakmulti.dir/link.txt --verbose=1 -[ 77%] Linking CXX executable vcfgenosummarize -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfgenosummarize.dir/link.txt --verbose=1 -[ 77%] Linking CXX executable vcfcat -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfcat.dir/link.txt --verbose=1 -[ 77%] Linking CXX executable vcfevenregions -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfevenregions.dir/link.txt --verbose=1 -[ 77%] Linking CXX executable vcfgenosamplenames -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfgenosamplenames.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfintersect.dir/link.d CMakeFiles/vcfintersect.dir/src/vcfintersect.cpp.o -o vcfintersect -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfsitesummarize.dir/link.d CMakeFiles/vcfsitesummarize.dir/src/vcfsitesummarize.cpp.o -o vcfsitesummarize -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 77%] Built target vcfintersect +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfstreamsort.dir/link.d CMakeFiles/vcfstreamsort.dir/src/vcfstreamsort.cpp.o -o vcfstreamsort -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 77%] Built target vcfsitesummarize +[ 77%] Built target vcfstreamsort make -f CMakeFiles/vcfgeno2alleles.dir/build.make CMakeFiles/vcfgeno2alleles.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +make -f CMakeFiles/vcfindex.dir/build.make CMakeFiles/vcfindex.dir/depend cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfgeno2alleles.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfindex.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfgeno2alleles.dir/build.make CMakeFiles/vcfgeno2alleles.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 78%] Building CXX object CMakeFiles/vcfgeno2alleles.dir/src/vcfgeno2alleles.cpp.o -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfgeno2alleles.dir/src/vcfgeno2alleles.cpp.o -MF CMakeFiles/vcfgeno2alleles.dir/src/vcfgeno2alleles.cpp.o.d -o CMakeFiles/vcfgeno2alleles.dir/src/vcfgeno2alleles.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfgeno2alleles.cpp -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfstreamsort.dir/link.d CMakeFiles/vcfstreamsort.dir/src/vcfstreamsort.cpp.o -o vcfstreamsort -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 78%] Built target vcfstreamsort -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcf2fasta.dir/link.d CMakeFiles/vcf2fasta.dir/src/vcf2fasta.cpp.o -o vcf2fasta -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 -make -f CMakeFiles/vcfindex.dir/build.make CMakeFiles/vcfindex.dir/depend make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfindex.dir/DependInfo.cmake "--color=" -[ 78%] Built target vcf2fasta -make -f CMakeFiles/vcf2dag.dir/build.make CMakeFiles/vcf2dag.dir/depend -make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcf2dag.dir/DependInfo.cmake "--color=" +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfgeno2alleles.dir/src/vcfgeno2alleles.cpp.o -MF CMakeFiles/vcfgeno2alleles.dir/src/vcfgeno2alleles.cpp.o.d -o CMakeFiles/vcfgeno2alleles.dir/src/vcfgeno2alleles.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfgeno2alleles.cpp make -f CMakeFiles/vcfindex.dir/build.make CMakeFiles/vcfindex.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 78%] Building CXX object CMakeFiles/vcfindex.dir/src/vcfindex.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfindex.dir/src/vcfindex.cpp.o -MF CMakeFiles/vcfindex.dir/src/vcfindex.cpp.o.d -o CMakeFiles/vcfindex.dir/src/vcfindex.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfindex.cpp +[ 78%] Linking CXX executable vcfgenosamplenames +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfgenosamplenames.dir/link.txt --verbose=1 +[ 78%] Linking CXX executable vcfgenosummarize +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfgenosummarize.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfevenregions.dir/link.d CMakeFiles/vcfevenregions.dir/src/vcfevenregions.cpp.o -o vcfevenregions -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 78%] Built target vcfevenregions +make -f CMakeFiles/vcf2dag.dir/build.make CMakeFiles/vcf2dag.dir/depend +make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcf2dag.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcf2dag.dir/build.make CMakeFiles/vcf2dag.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 79%] Building CXX object CMakeFiles/vcf2dag.dir/src/vcf2dag.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcf2dag.dir/src/vcf2dag.cpp.o -MF CMakeFiles/vcf2dag.dir/src/vcf2dag.cpp.o.d -o CMakeFiles/vcf2dag.dir/src/vcf2dag.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcf2dag.cpp -[ 80%] Linking CXX executable vcfleftalign -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfleftalign.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfevenregions.dir/link.d CMakeFiles/vcfevenregions.dir/src/vcfevenregions.cpp.o -o vcfevenregions -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfbreakmulti.dir/link.d CMakeFiles/vcfbreakmulti.dir/src/vcfbreakmulti.cpp.o -o vcfbreakmulti -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 80%] Built target vcfevenregions +[ 79%] Built target vcfbreakmulti make -f CMakeFiles/vcfsample2info.dir/build.make CMakeFiles/vcfsample2info.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfsample2info.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfsample2info.dir/build.make CMakeFiles/vcfsample2info.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 80%] Building CXX object CMakeFiles/vcfsample2info.dir/src/vcfsample2info.cpp.o -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfsample2info.dir/src/vcfsample2info.cpp.o -MF CMakeFiles/vcfsample2info.dir/src/vcfsample2info.cpp.o.d -o CMakeFiles/vcfsample2info.dir/src/vcfsample2info.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfsample2info.cpp -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfgenosamplenames.dir/link.d CMakeFiles/vcfgenosamplenames.dir/src/vcfgenosamplenames.cpp.o -o vcfgenosamplenames -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcf2fasta.dir/link.d CMakeFiles/vcf2fasta.dir/src/vcf2fasta.cpp.o -o vcf2fasta -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 80%] Built target vcfgenosamplenames +[ 79%] Building CXX object CMakeFiles/vcfsample2info.dir/src/vcfsample2info.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfsample2info.dir/src/vcfsample2info.cpp.o -MF CMakeFiles/vcfsample2info.dir/src/vcfsample2info.cpp.o.d -o CMakeFiles/vcfsample2info.dir/src/vcfsample2info.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfsample2info.cpp +[ 79%] Built target vcf2fasta make -f CMakeFiles/vcfqual2info.dir/build.make CMakeFiles/vcfqual2info.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfqual2info.dir/DependInfo.cmake "--color=" -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfcat.dir/link.d CMakeFiles/vcfcat.dir/src/vcfcat.cpp.o -o vcfcat -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 80%] Linking CXX executable vcfleftalign +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfleftalign.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfqual2info.dir/build.make CMakeFiles/vcfqual2info.dir/build -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfbreakmulti.dir/link.d CMakeFiles/vcfbreakmulti.dir/src/vcfbreakmulti.cpp.o -o vcfbreakmulti -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 80%] Building CXX object CMakeFiles/vcfqual2info.dir/src/vcfqual2info.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfqual2info.dir/src/vcfqual2info.cpp.o -MF CMakeFiles/vcfqual2info.dir/src/vcfqual2info.cpp.o.d -o CMakeFiles/vcfqual2info.dir/src/vcfqual2info.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfqual2info.cpp +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfcat.dir/link.d CMakeFiles/vcfcat.dir/src/vcfcat.cpp.o -o vcfcat -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 80%] Built target vcfcat -make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfinfo2qual.dir/build.make CMakeFiles/vcfinfo2qual.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfinfo2qual.dir/DependInfo.cmake "--color=" -[ 80%] Built target vcfbreakmulti -make -f CMakeFiles/vcfglbound.dir/build.make CMakeFiles/vcfglbound.dir/depend -[ 80%] Building CXX object CMakeFiles/vcfqual2info.dir/src/vcfqual2info.cpp.o -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfqual2info.dir/src/vcfqual2info.cpp.o -MF CMakeFiles/vcfqual2info.dir/src/vcfqual2info.cpp.o.d -o CMakeFiles/vcfqual2info.dir/src/vcfqual2info.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfqual2info.cpp -make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfglbound.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfinfo2qual.dir/build.make CMakeFiles/vcfinfo2qual.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 80%] Building CXX object CMakeFiles/vcfinfo2qual.dir/src/vcfinfo2qual.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfinfo2qual.dir/src/vcfinfo2qual.cpp.o -MF CMakeFiles/vcfinfo2qual.dir/src/vcfinfo2qual.cpp.o.d -o CMakeFiles/vcfinfo2qual.dir/src/vcfinfo2qual.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfinfo2qual.cpp +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfgenosamplenames.dir/link.d CMakeFiles/vcfgenosamplenames.dir/src/vcfgenosamplenames.cpp.o -o vcfgenosamplenames -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 80%] Built target vcfgenosamplenames +make -f CMakeFiles/vcfglbound.dir/build.make CMakeFiles/vcfglbound.dir/depend +make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfglbound.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfglbound.dir/build.make CMakeFiles/vcfglbound.dir/build -[ 80%] Building CXX object CMakeFiles/vcfinfo2qual.dir/src/vcfinfo2qual.cpp.o make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfinfo2qual.dir/src/vcfinfo2qual.cpp.o -MF CMakeFiles/vcfinfo2qual.dir/src/vcfinfo2qual.cpp.o.d -o CMakeFiles/vcfinfo2qual.dir/src/vcfinfo2qual.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfinfo2qual.cpp [ 80%] Building CXX object CMakeFiles/vcfglbound.dir/src/vcfglbound.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfglbound.dir/src/vcfglbound.cpp.o -MF CMakeFiles/vcfglbound.dir/src/vcfglbound.cpp.o.d -o CMakeFiles/vcfglbound.dir/src/vcfglbound.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfglbound.cpp +[ 80%] Linking CXX executable vcfgeno2alleles +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfgeno2alleles.dir/link.txt --verbose=1 +[ 80%] Linking CXX executable vcfgeno2haplo +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfgeno2haplo.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfremap.dir/link.d CMakeFiles/vcfremap.dir/src/vcfremap.cpp.o -o vcfremap -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 80%] Built target vcfremap make -f CMakeFiles/vcfinfosummarize.dir/build.make CMakeFiles/vcfinfosummarize.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfinfosummarize.dir/DependInfo.cmake "--color=" -[ 80%] Linking CXX executable vcfgeno2haplo -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfgeno2haplo.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfinfosummarize.dir/build.make CMakeFiles/vcfinfosummarize.dir/build -[ 80%] Linking CXX executable vcfcombine -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfcombine.dir/link.txt --verbose=1 -make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 80%] Building CXX object CMakeFiles/vcfinfosummarize.dir/src/vcfinfosummarize.cpp.o -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfinfosummarize.dir/src/vcfinfosummarize.cpp.o -MF CMakeFiles/vcfinfosummarize.dir/src/vcfinfosummarize.cpp.o.d -o CMakeFiles/vcfinfosummarize.dir/src/vcfinfosummarize.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfinfosummarize.cpp -[ 80%] Linking CXX executable vcfgeno2alleles [ 81%] Linking CXX executable vcfindex -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfgeno2alleles.dir/link.txt --verbose=1 +make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfindex.dir/link.txt --verbose=1 +[ 81%] Building CXX object CMakeFiles/vcfinfosummarize.dir/src/vcfinfosummarize.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfinfosummarize.dir/src/vcfinfosummarize.cpp.o -MF CMakeFiles/vcfinfosummarize.dir/src/vcfinfosummarize.cpp.o.d -o CMakeFiles/vcfinfosummarize.dir/src/vcfinfosummarize.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfinfosummarize.cpp +[ 81%] Linking CXX executable vcfcombine +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfcombine.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfgenosummarize.dir/link.d CMakeFiles/vcfgenosummarize.dir/src/vcfgenosummarize.cpp.o -o vcfgenosummarize -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 81%] Built target vcfgenosummarize @@ -2077,89 +2113,89 @@ make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 82%] Building CXX object CMakeFiles/vcfcreatemulti.dir/src/vcfcreatemulti.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfcreatemulti.dir/src/vcfcreatemulti.cpp.o -MF CMakeFiles/vcfcreatemulti.dir/src/vcfcreatemulti.cpp.o.d -o CMakeFiles/vcfcreatemulti.dir/src/vcfcreatemulti.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfcreatemulti.cpp -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfindex.dir/link.d CMakeFiles/vcfindex.dir/src/vcfindex.cpp.o -o vcfindex -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +[ 83%] Linking CXX executable vcfqual2info +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfqual2info.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfgeno2alleles.dir/link.d CMakeFiles/vcfgeno2alleles.dir/src/vcfgeno2alleles.cpp.o -o vcfgeno2alleles -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 82%] Built target vcfindex +[ 83%] Linking CXX executable vcf2dag +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcf2dag.dir/link.txt --verbose=1 +[ 83%] Built target vcfgeno2alleles make -f CMakeFiles/vcfallelicprimitives.dir/build.make CMakeFiles/vcfallelicprimitives.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfallelicprimitives.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfallelicprimitives.dir/build.make CMakeFiles/vcfallelicprimitives.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 83%] Building CXX object CMakeFiles/vcfallelicprimitives.dir/src/vcfallelicprimitives.cpp.o +[ 84%] Linking CXX executable vcfsample2info +[ 85%] Building CXX object CMakeFiles/vcfallelicprimitives.dir/src/vcfallelicprimitives.cpp.o +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfsample2info.dir/link.txt --verbose=1 /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfallelicprimitives.dir/src/vcfallelicprimitives.cpp.o -MF CMakeFiles/vcfallelicprimitives.dir/src/vcfallelicprimitives.cpp.o.d -o CMakeFiles/vcfallelicprimitives.dir/src/vcfallelicprimitives.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfallelicprimitives.cpp -[ 83%] Linking CXX executable vcf2dag -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcf2dag.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfgeno2alleles.dir/link.d CMakeFiles/vcfgeno2alleles.dir/src/vcfgeno2alleles.cpp.o -o vcfgeno2alleles -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfleftalign.dir/link.d CMakeFiles/vcfleftalign.dir/src/vcfleftalign.cpp.o -o vcfleftalign -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfindex.dir/link.d CMakeFiles/vcfindex.dir/src/vcfindex.cpp.o -o vcfindex -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 83%] Built target vcfgeno2alleles +[ 86%] Linking CXX executable vcfinfo2qual +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfinfo2qual.dir/link.txt --verbose=1 +[ 86%] Built target vcfindex make -f CMakeFiles/vcfcleancomplex.dir/build.make CMakeFiles/vcfcleancomplex.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfcleancomplex.dir/DependInfo.cmake "--color=" -[ 84%] Linking CXX executable vcfqual2info -[ 84%] Built target vcfleftalign -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfqual2info.dir/link.txt --verbose=1 -make -f CMakeFiles/vcfparsealts.dir/build.make CMakeFiles/vcfparsealts.dir/depend -make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfparsealts.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfcleancomplex.dir/build.make CMakeFiles/vcfcleancomplex.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 87%] Building CXX object CMakeFiles/vcfcleancomplex.dir/src/vcfcleancomplex.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfcleancomplex.dir/src/vcfcleancomplex.cpp.o -MF CMakeFiles/vcfcleancomplex.dir/src/vcfcleancomplex.cpp.o.d -o CMakeFiles/vcfcleancomplex.dir/src/vcfcleancomplex.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfcleancomplex.cpp +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfleftalign.dir/link.d CMakeFiles/vcfleftalign.dir/src/vcfleftalign.cpp.o -o vcfleftalign -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 88%] Linking CXX executable vcfglbound +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfglbound.dir/link.txt --verbose=1 +[ 88%] Built target vcfleftalign +make -f CMakeFiles/vcfparsealts.dir/build.make CMakeFiles/vcfparsealts.dir/depend +make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfparsealts.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfparsealts.dir/build.make CMakeFiles/vcfparsealts.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 85%] Building CXX object CMakeFiles/vcfcleancomplex.dir/src/vcfcleancomplex.cpp.o -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfcleancomplex.dir/src/vcfcleancomplex.cpp.o -MF CMakeFiles/vcfcleancomplex.dir/src/vcfcleancomplex.cpp.o.d -o CMakeFiles/vcfcleancomplex.dir/src/vcfcleancomplex.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfcleancomplex.cpp -[ 85%] Building CXX object CMakeFiles/vcfparsealts.dir/src/vcfparsealts.cpp.o +[ 88%] Building CXX object CMakeFiles/vcfparsealts.dir/src/vcfparsealts.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfparsealts.dir/src/vcfparsealts.cpp.o -MF CMakeFiles/vcfparsealts.dir/src/vcfparsealts.cpp.o.d -o CMakeFiles/vcfparsealts.dir/src/vcfparsealts.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfparsealts.cpp -[ 86%] Linking CXX executable vcfinfosummarize -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfinfosummarize.dir/link.txt --verbose=1 -[ 87%] Linking CXX executable vcfinfo2qual -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfinfo2qual.dir/link.txt --verbose=1 -[ 88%] Linking CXX executable vcfglbound -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfglbound.dir/link.txt --verbose=1 -[ 89%] Linking CXX executable vcfsample2info -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfsample2info.dir/link.txt --verbose=1 -[ 89%] Linking CXX executable vcfcreatemulti -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfcreatemulti.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfqual2info.dir/link.d CMakeFiles/vcfqual2info.dir/src/vcfqual2info.cpp.o -o vcfqual2info -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 89%] Built target vcfqual2info +[ 88%] Built target vcfqual2info make -f CMakeFiles/vcfroc.dir/build.make CMakeFiles/vcfroc.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfroc.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfroc.dir/build.make CMakeFiles/vcfroc.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 89%] Building CXX object CMakeFiles/vcfroc.dir/src/vcfroc.cpp.o +[ 88%] Building CXX object CMakeFiles/vcfroc.dir/src/vcfroc.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfroc.dir/src/vcfroc.cpp.o -MF CMakeFiles/vcfroc.dir/src/vcfroc.cpp.o.d -o CMakeFiles/vcfroc.dir/src/vcfroc.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfroc.cpp -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfcombine.dir/link.d CMakeFiles/vcfcombine.dir/src/vcfcombine.cpp.o -o vcfcombine -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 89%] Linking CXX executable vcfinfosummarize +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfinfosummarize.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfinfo2qual.dir/link.d CMakeFiles/vcfinfo2qual.dir/src/vcfinfo2qual.cpp.o -o vcfinfo2qual -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 89%] Built target vcfcombine +[ 89%] Built target vcfinfo2qual make -f CMakeFiles/vcfstats.dir/build.make CMakeFiles/vcfstats.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfstats.dir/DependInfo.cmake "--color=" -[ 89%] Built target vcfinfo2qual -make -f CMakeFiles/vcfwave.dir/build.make CMakeFiles/vcfwave.dir/depend -make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfwave.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' make -f CMakeFiles/vcfstats.dir/build.make CMakeFiles/vcfstats.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -make -f CMakeFiles/vcfwave.dir/build.make CMakeFiles/vcfwave.dir/build [ 89%] Building CXX object CMakeFiles/vcfstats.dir/src/vcfstats.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfstats.dir/src/vcfstats.cpp.o -MF CMakeFiles/vcfstats.dir/src/vcfstats.cpp.o.d -o CMakeFiles/vcfstats.dir/src/vcfstats.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfstats.cpp +[ 89%] Linking CXX executable vcfcreatemulti +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfcreatemulti.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfsample2info.dir/link.d CMakeFiles/vcfsample2info.dir/src/vcfsample2info.cpp.o -o vcfsample2info -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 89%] Built target vcfsample2info +make -f CMakeFiles/vcfwave.dir/build.make CMakeFiles/vcfwave.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcf2dag.dir/link.d CMakeFiles/vcf2dag.dir/src/vcf2dag.cpp.o -o vcf2dag -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/vcfwave.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +make -f CMakeFiles/vcfwave.dir/build.make CMakeFiles/vcfwave.dir/build +make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 89%] Building CXX object CMakeFiles/vcfwave.dir/src/vcfwave.cpp.o -[ 89%] Built target vcf2dag /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfwave.dir/src/vcfwave.cpp.o -MF CMakeFiles/vcfwave.dir/src/vcfwave.cpp.o.d -o CMakeFiles/vcfwave.dir/src/vcfwave.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcfwave.cpp +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcf2dag.dir/link.d CMakeFiles/vcf2dag.dir/src/vcf2dag.cpp.o -o vcf2dag -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 89%] Built target vcf2dag make -f CMakeFiles/pyvcflib.dir/build.make CMakeFiles/pyvcflib.dir/depend make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' cd /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/CMakeFiles/pyvcflib.dir/DependInfo.cmake "--color=" @@ -2167,78 +2203,78 @@ make -f CMakeFiles/pyvcflib.dir/build.make CMakeFiles/pyvcflib.dir/build make[4]: Entering directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 90%] Building CXX object CMakeFiles/pyvcflib.dir/src/pythonffi.cpp.o -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -Dpyvcflib_EXPORTS -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/python3.13 -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIC -fvisibility=hidden -MD -MT CMakeFiles/pyvcflib.dir/src/pythonffi.cpp.o -MF CMakeFiles/pyvcflib.dir/src/pythonffi.cpp.o.d -o CMakeFiles/pyvcflib.dir/src/pythonffi.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/pythonffi.cpp -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfinfosummarize.dir/link.d CMakeFiles/vcfinfosummarize.dir/src/vcfinfosummarize.cpp.o -o vcfinfosummarize -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 90%] Built target vcfinfosummarize /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfglbound.dir/link.d CMakeFiles/vcfglbound.dir/src/vcfglbound.cpp.o -o vcfglbound -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -Dpyvcflib_EXPORTS -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/python3.13 -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIC -fvisibility=hidden -MD -MT CMakeFiles/pyvcflib.dir/src/pythonffi.cpp.o -MF CMakeFiles/pyvcflib.dir/src/pythonffi.cpp.o.d -o CMakeFiles/pyvcflib.dir/src/pythonffi.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/pythonffi.cpp make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [ 91%] Building CXX object CMakeFiles/vcfparsealts.dir/src/legacy.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfparsealts.dir/src/legacy.cpp.o -MF CMakeFiles/vcfparsealts.dir/src/legacy.cpp.o.d -o CMakeFiles/vcfparsealts.dir/src/legacy.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/legacy.cpp -[ 91%] Building CXX object CMakeFiles/vcfallelicprimitives.dir/src/legacy.cpp.o -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfallelicprimitives.dir/src/legacy.cpp.o -MF CMakeFiles/vcfallelicprimitives.dir/src/legacy.cpp.o.d -o CMakeFiles/vcfallelicprimitives.dir/src/legacy.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/legacy.cpp [ 91%] Built target vcfglbound -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfsample2info.dir/link.d CMakeFiles/vcfsample2info.dir/src/vcfsample2info.cpp.o -o vcfsample2info -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +[ 91%] Building CXX object CMakeFiles/vcfcleancomplex.dir/src/legacy.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfcleancomplex.dir/src/legacy.cpp.o -MF CMakeFiles/vcfcleancomplex.dir/src/legacy.cpp.o.d -o CMakeFiles/vcfcleancomplex.dir/src/legacy.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/legacy.cpp +[ 92%] Building CXX object CMakeFiles/vcfcleancomplex.dir/src/vcf-wfa.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfcleancomplex.dir/src/vcf-wfa.cpp.o -MF CMakeFiles/vcfcleancomplex.dir/src/vcf-wfa.cpp.o.d -o CMakeFiles/vcfcleancomplex.dir/src/vcf-wfa.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcf-wfa.cpp +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfcombine.dir/link.d CMakeFiles/vcfcombine.dir/src/vcfcombine.cpp.o -o vcfcombine -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[ 92%] Built target vcfcombine +[ 92%] Building CXX object CMakeFiles/vcfparsealts.dir/src/vcf-wfa.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfparsealts.dir/src/vcf-wfa.cpp.o -MF CMakeFiles/vcfparsealts.dir/src/vcf-wfa.cpp.o.d -o CMakeFiles/vcfparsealts.dir/src/vcf-wfa.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcf-wfa.cpp +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfinfosummarize.dir/link.d CMakeFiles/vcfinfosummarize.dir/src/vcfinfosummarize.cpp.o -o vcfinfosummarize -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 92%] Building CXX object CMakeFiles/vcfwave.dir/src/legacy.cpp.o +[ 92%] Built target vcfinfosummarize +[ 93%] Building CXX object CMakeFiles/vcfwave.dir/src/legacy.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfwave.dir/src/legacy.cpp.o -MF CMakeFiles/vcfwave.dir/src/legacy.cpp.o.d -o CMakeFiles/vcfwave.dir/src/legacy.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/legacy.cpp -[ 92%] Built target vcfsample2info -[ 92%] Building CXX object CMakeFiles/vcfcleancomplex.dir/src/legacy.cpp.o -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfcleancomplex.dir/src/legacy.cpp.o -MF CMakeFiles/vcfcleancomplex.dir/src/legacy.cpp.o.d -o CMakeFiles/vcfcleancomplex.dir/src/legacy.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/legacy.cpp -[ 92%] Building CXX object CMakeFiles/vcfwave.dir/src/vcf-wfa.cpp.o -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfwave.dir/src/vcf-wfa.cpp.o -MF CMakeFiles/vcfwave.dir/src/vcf-wfa.cpp.o.d -o CMakeFiles/vcfwave.dir/src/vcf-wfa.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcf-wfa.cpp -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfcreatemulti.dir/link.d CMakeFiles/vcfcreatemulti.dir/src/vcfcreatemulti.cpp.o -o vcfcreatemulti -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +[ 93%] Building CXX object CMakeFiles/vcfallelicprimitives.dir/src/legacy.cpp.o +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfallelicprimitives.dir/src/legacy.cpp.o -MF CMakeFiles/vcfallelicprimitives.dir/src/legacy.cpp.o.d -o CMakeFiles/vcfallelicprimitives.dir/src/legacy.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/legacy.cpp +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfgeno2haplo.dir/link.d CMakeFiles/vcfgeno2haplo.dir/src/vcfgeno2haplo.cpp.o -o vcfgeno2haplo -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 92%] Built target vcfcreatemulti -[ 93%] Building CXX object CMakeFiles/vcfcleancomplex.dir/src/vcf-wfa.cpp.o -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfcleancomplex.dir/src/vcf-wfa.cpp.o -MF CMakeFiles/vcfcleancomplex.dir/src/vcf-wfa.cpp.o.d -o CMakeFiles/vcfcleancomplex.dir/src/vcf-wfa.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcf-wfa.cpp +[ 93%] Built target vcfgeno2haplo [ 94%] Building CXX object CMakeFiles/vcfallelicprimitives.dir/src/vcf-wfa.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfallelicprimitives.dir/src/vcf-wfa.cpp.o -MF CMakeFiles/vcfallelicprimitives.dir/src/vcf-wfa.cpp.o.d -o CMakeFiles/vcfallelicprimitives.dir/src/vcf-wfa.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcf-wfa.cpp -[ 94%] Building CXX object CMakeFiles/vcfparsealts.dir/src/vcf-wfa.cpp.o -/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfparsealts.dir/src/vcf-wfa.cpp.o -MF CMakeFiles/vcfparsealts.dir/src/vcf-wfa.cpp.o.d -o CMakeFiles/vcfparsealts.dir/src/vcf-wfa.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcf-wfa.cpp -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfgeno2haplo.dir/link.d CMakeFiles/vcfgeno2haplo.dir/src/vcfgeno2haplo.cpp.o -o vcfgeno2haplo -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfcreatemulti.dir/link.d CMakeFiles/vcfcreatemulti.dir/src/vcfcreatemulti.cpp.o -o vcfcreatemulti -Wl,-rpath,"\$ORIGIN:" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[ 94%] Built target vcfgeno2haplo +[ 94%] Built target vcfcreatemulti [ 95%] Building CXX object CMakeFiles/vcfstats.dir/src/legacy.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfstats.dir/src/legacy.cpp.o -MF CMakeFiles/vcfstats.dir/src/legacy.cpp.o.d -o CMakeFiles/vcfstats.dir/src/legacy.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/legacy.cpp [ 95%] Building CXX object CMakeFiles/vcfstats.dir/src/vcf-wfa.cpp.o +[ 95%] Building CXX object CMakeFiles/vcfwave.dir/src/vcf-wfa.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfstats.dir/src/vcf-wfa.cpp.o -MF CMakeFiles/vcfstats.dir/src/vcf-wfa.cpp.o.d -o CMakeFiles/vcfstats.dir/src/vcf-wfa.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcf-wfa.cpp +/usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfwave.dir/src/vcf-wfa.cpp.o -MF CMakeFiles/vcfwave.dir/src/vcf-wfa.cpp.o.d -o CMakeFiles/vcfwave.dir/src/vcf-wfa.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcf-wfa.cpp [ 96%] Building CXX object CMakeFiles/vcfroc.dir/src/legacy.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfroc.dir/src/legacy.cpp.o -MF CMakeFiles/vcfroc.dir/src/legacy.cpp.o.d -o CMakeFiles/vcfroc.dir/src/legacy.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/legacy.cpp [ 96%] Building CXX object CMakeFiles/vcfroc.dir/src/vcf-wfa.cpp.o /usr/bin/c++ -DNO_ZIG=1 -DVCFLIB_VERSION=\"1.0.10\" -DVERSION=\"1.0.10\" -I/build/reproducible-path/libvcflib-1.0.12+dfsg/include -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/intervaltree -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/filevercmp -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/c-progress-bar -I/build/reproducible-path/libvcflib-1.0.12+dfsg/contrib/tabixpp -I/include/wfa2lib -I/usr/include/wfa2lib -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -std=gnu++17 -flto=auto -fno-fat-lto-objects -fPIE -MD -MT CMakeFiles/vcfroc.dir/src/vcf-wfa.cpp.o -MF CMakeFiles/vcfroc.dir/src/vcf-wfa.cpp.o.d -o CMakeFiles/vcfroc.dir/src/vcf-wfa.cpp.o -c /build/reproducible-path/libvcflib-1.0.12+dfsg/src/vcf-wfa.cpp -[ 97%] Linking CXX executable vcfwave -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfwave.dir/link.txt --verbose=1 +[ 96%] Linking CXX executable vcfcleancomplex +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfcleancomplex.dir/link.txt --verbose=1 +[ 97%] Linking CXX executable vcfparsealts +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfparsealts.dir/link.txt --verbose=1 [ 97%] Linking CXX executable vcfallelicprimitives /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfallelicprimitives.dir/link.txt --verbose=1 -[ 97%] Linking CXX executable vcfcleancomplex -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfcleancomplex.dir/link.txt --verbose=1 [ 98%] Linking CXX executable vcfstats /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfstats.dir/link.txt --verbose=1 -[ 99%] Linking CXX executable vcfroc +[ 99%] Linking CXX executable vcfwave +/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfwave.dir/link.txt --verbose=1 +[100%] Linking CXX executable vcfroc /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfroc.dir/link.txt --verbose=1 -[100%] Linking CXX executable vcfparsealts -/usr/bin/cmake -E cmake_link_script CMakeFiles/vcfparsealts.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfwave.dir/link.d CMakeFiles/vcfwave.dir/src/vcfwave.cpp.o CMakeFiles/vcfwave.dir/src/legacy.cpp.o "CMakeFiles/vcfwave.dir/src/vcf-wfa.cpp.o" -o vcfwave -Wl,-rpath,"\$ORIGIN" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so /usr/lib/aarch64-linux-gnu/libwfa2.so /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[100%] Built target vcfwave -[100%] Linking CXX shared module pyvcflib.cpython-313-aarch64-linux-gnu.so -/usr/bin/cmake -E cmake_link_script CMakeFiles/pyvcflib.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfcleancomplex.dir/link.d CMakeFiles/vcfcleancomplex.dir/src/vcfcleancomplex.cpp.o CMakeFiles/vcfcleancomplex.dir/src/legacy.cpp.o "CMakeFiles/vcfcleancomplex.dir/src/vcf-wfa.cpp.o" -o vcfcleancomplex -Wl,-rpath,"\$ORIGIN" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so /usr/lib/aarch64-linux-gnu/libwfa2.so /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [100%] Built target vcfcleancomplex +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfparsealts.dir/link.d CMakeFiles/vcfparsealts.dir/src/vcfparsealts.cpp.o CMakeFiles/vcfparsealts.dir/src/legacy.cpp.o "CMakeFiles/vcfparsealts.dir/src/vcf-wfa.cpp.o" -o vcfparsealts -Wl,-rpath,"\$ORIGIN" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so /usr/lib/aarch64-linux-gnu/libwfa2.so /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[100%] Built target vcfparsealts +[100%] Linking CXX shared module pyvcflib.cpython-313-aarch64-linux-gnu.so +/usr/bin/cmake -E cmake_link_script CMakeFiles/pyvcflib.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfstats.dir/link.d CMakeFiles/vcfstats.dir/src/vcfstats.cpp.o CMakeFiles/vcfstats.dir/src/legacy.cpp.o "CMakeFiles/vcfstats.dir/src/vcf-wfa.cpp.o" -o vcfstats -Wl,-rpath,"\$ORIGIN" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so /usr/lib/aarch64-linux-gnu/libwfa2.so /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [100%] Built target vcfstats +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfwave.dir/link.d CMakeFiles/vcfwave.dir/src/vcfwave.cpp.o CMakeFiles/vcfwave.dir/src/legacy.cpp.o "CMakeFiles/vcfwave.dir/src/vcf-wfa.cpp.o" -o vcfwave -Wl,-rpath,"\$ORIGIN" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so /usr/lib/aarch64-linux-gnu/libwfa2.so /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 +make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' +[100%] Built target vcfwave /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfallelicprimitives.dir/link.d CMakeFiles/vcfallelicprimitives.dir/src/vcfallelicprimitives.cpp.o CMakeFiles/vcfallelicprimitives.dir/src/legacy.cpp.o "CMakeFiles/vcfallelicprimitives.dir/src/vcf-wfa.cpp.o" -o vcfallelicprimitives -Wl,-rpath,"\$ORIGIN" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so /usr/lib/aarch64-linux-gnu/libwfa2.so /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [100%] Built target vcfallelicprimitives /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfroc.dir/link.d CMakeFiles/vcfroc.dir/src/vcfroc.cpp.o CMakeFiles/vcfroc.dir/src/legacy.cpp.o "CMakeFiles/vcfroc.dir/src/vcf-wfa.cpp.o" -o vcfroc -Wl,-rpath,"\$ORIGIN" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so /usr/lib/aarch64-linux-gnu/libwfa2.so /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' [100%] Built target vcfroc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/vcfparsealts.dir/link.d CMakeFiles/vcfparsealts.dir/src/vcfparsealts.cpp.o CMakeFiles/vcfparsealts.dir/src/legacy.cpp.o "CMakeFiles/vcfparsealts.dir/src/vcf-wfa.cpp.o" -o vcfparsealts -Wl,-rpath,"\$ORIGIN" -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so libvcflib.so.2 -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so /usr/lib/aarch64-linux-gnu/libwfa2.so /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 -make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' -[100%] Built target vcfparsealts /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/libvcflib-1.0.12+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -I/usr/include -flto=auto -fno-fat-lto-objects -Wl,--dependency-file=CMakeFiles/pyvcflib.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -o pyvcflib.cpython-313-aarch64-linux-gnu.so CMakeFiles/pyvcflib.dir/src/pythonffi.cpp.o -Wl,-rpath,"\$ORIGIN:" libvcflib.so.2 -lhts /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libhts.so /usr/lib/aarch64-linux-gnu/libwfa2.so /usr/lib/aarch64-linux-gnu/libsmithwaterman.so /usr/lib/aarch64-linux-gnu/libdisorder.so /usr/lib/aarch64-linux-gnu/libfastahack.so -ltabixpp -lwfa2 /usr/bin/strip /build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu/pyvcflib.cpython-313-aarch64-linux-gnu.so make[4]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg/obj-aarch64-linux-gnu' @@ -2255,27 +2291,27 @@ cd test && ctest . Test project /build/reproducible-path/libvcflib-1.0.12+dfsg/test Start 1: realign -1/9 Test #1: realign .......................... Passed 0.11 sec +1/9 Test #1: realign .......................... Passed 0.13 sec Start 2: pyvcflib -2/9 Test #2: pyvcflib ......................... Passed 0.15 sec +2/9 Test #2: pyvcflib ......................... Passed 0.13 sec Start 3: vcflib-api -3/9 Test #3: vcflib-api ....................... Passed 0.09 sec +3/9 Test #3: vcflib-api ....................... Passed 0.13 sec Start 4: vcf2tsv -4/9 Test #4: vcf2tsv .......................... Passed 0.22 sec +4/9 Test #4: vcf2tsv .......................... Passed 0.19 sec Start 5: vcfallelicprimitives -5/9 Test #5: vcfallelicprimitives ............. Passed 1.73 sec +5/9 Test #5: vcfallelicprimitives ............. Passed 1.12 sec Start 6: vcfwave -6/9 Test #6: vcfwave .......................... Passed 0.86 sec +6/9 Test #6: vcfwave .......................... Passed 0.55 sec Start 7: vcffilter 7/9 Test #7: vcffilter ........................ Passed 0.27 sec Start 8: vcfnulldotslashdot -8/9 Test #8: vcfnulldotslashdot ............... Passed 0.19 sec +8/9 Test #8: vcfnulldotslashdot ............... Passed 0.16 sec Start 9: doc/vcfintersect -9/9 Test #9: doc/vcfintersect ................. Passed 0.16 sec +9/9 Test #9: doc/vcfintersect ................. Passed 0.11 sec 100% tests passed, 0 tests failed out of 9 -Total Test time (real) = 3.80 sec +Total Test time (real) = 2.80 sec cd .. && rm -f build make[1]: Leaving directory '/build/reproducible-path/libvcflib-1.0.12+dfsg' create-stamp debian/debhelper-build-stamp @@ -2665,11 +2701,11 @@ dpkg-gencontrol: warning: package libvcflib-tools: substitution variable ${perl:Depends} unused, but is defined dh_md5sums -O--buildsystem=cmake dh_builddeb -O--buildsystem=cmake -dpkg-deb: building package 'libvcflib-dev' in '../libvcflib-dev_1.0.12+dfsg-1_arm64.deb'. -dpkg-deb: building package 'libvcflib-tools-dbgsym' in '../libvcflib-tools-dbgsym_1.0.12+dfsg-1_arm64.deb'. -dpkg-deb: building package 'libvcflib2-dbgsym' in '../libvcflib2-dbgsym_1.0.12+dfsg-1_arm64.deb'. dpkg-deb: building package 'libvcflib2' in '../libvcflib2_1.0.12+dfsg-1_arm64.deb'. +dpkg-deb: building package 'libvcflib2-dbgsym' in '../libvcflib2-dbgsym_1.0.12+dfsg-1_arm64.deb'. +dpkg-deb: building package 'libvcflib-tools-dbgsym' in '../libvcflib-tools-dbgsym_1.0.12+dfsg-1_arm64.deb'. dpkg-deb: building package 'libvcflib-tools' in '../libvcflib-tools_1.0.12+dfsg-1_arm64.deb'. +dpkg-deb: building package 'libvcflib-dev' in '../libvcflib-dev_1.0.12+dfsg-1_arm64.deb'. dpkg-genbuildinfo --build=binary -O../libvcflib_1.0.12+dfsg-1_arm64.buildinfo dpkg-genchanges --build=binary -O../libvcflib_1.0.12+dfsg-1_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -2677,12 +2713,14 @@ 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/3685470/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/3685470/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/3141773 and its subdirectories -I: Current time: Thu Feb 20 09:19:44 -12 2025 -I: pbuilder-time-stamp: 1740086384 +I: removing directory /srv/workspace/pbuilder/3685470 and its subdirectories +I: Current time: Thu Mar 26 17:45:06 +14 2026 +I: pbuilder-time-stamp: 1774496706