Diff of the two buildlogs: -- --- b1/build.log 2025-08-31 14:52:15.832650703 +0000 +++ b2/build.log 2025-08-31 15:01:28.773363653 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Sun Aug 31 02:44:57 -12 2025 -I: pbuilder-time-stamp: 1756651497 +I: Current time: Sun Oct 4 11:15:19 +14 2026 +I: pbuilder-time-stamp: 1791062119 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -52,52 +52,84 @@ dpkg-source: info: applying fmt10.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/3538422/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/3281456/tmp/hooks/D01_modify_environment starting +debug: Running on infom02-amd64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Oct 3 21:15 /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/3281456/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/3281456/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='amd64' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' - DISTRIBUTION='unstable' - HOME='/root' - HOST_ARCH='amd64' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="37" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.2.37(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=16 ' + DIRSTACK=() + DISTRIBUTION=unstable + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='8f1e1a6f57024533aa1a1c5a7e89e093' - 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='3538422' - PS1='# ' - PS2='> ' + INVOCATION_ID=b5cd9ca552c94bd68c826db9e43d1d5f + LANG=C + LANGUAGE=et_EE:et + LC_ALL=C + MACHTYPE=x86_64-pc-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=3281456 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.l7WtARuP/pbuilderrc_Ywjn --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.l7WtARuP/b1 --logfile b1/build.log genomicsdb_1.5.5-1.dsc' - SUDO_GID='109' - SUDO_HOME='/var/lib/jenkins' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' + 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.l7WtARuP/pbuilderrc_z5Wd --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.l7WtARuP/b2 --logfile b2/build.log genomicsdb_1.5.5-1.dsc' + SUDO_GID=109 + SUDO_HOME=/var/lib/jenkins + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' I: uname -a - Linux infom01-amd64 6.12.41+deb13-cloud-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.41-1 (2025-08-12) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.12.41+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.41-1 (2025-08-12) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/3538422/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/3281456/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -686,7 +718,7 @@ Get: 491 http://deb.debian.org/debian unstable/main amd64 rapidjson-dev all 1.1.0+dfsg2-7.4 [98.1 kB] Get: 492 http://deb.debian.org/debian unstable/main amd64 testng all 6.9.12-4 [795 kB] Get: 493 http://deb.debian.org/debian unstable/main amd64 uuid-dev amd64 2.41.1-2 [49.0 kB] -Fetched 387 MB in 8s (48.6 MB/s) +Fetched 387 MB in 5s (72.5 MB/s) Preconfiguring packages ... Selecting previously unselected package libsystemd-shared:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19897 files and directories currently installed.) @@ -2287,8 +2319,8 @@ Setting up tzdata (2025b-5) ... Current default time zone: 'Etc/UTC' -Local time is now: Sun Aug 31 14:47:06 UTC 2025. -Universal Time is now: Sun Aug 31 14:47:06 UTC 2025. +Local time is now: Sat Oct 3 21:17:43 UTC 2026. +Universal Time is now: Sat Oct 3 21:17:43 UTC 2026. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libxcb-present0:amd64 (1.17.0-2+b1) ... @@ -2914,7 +2946,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/genomicsdb-1.5.5/ && 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 > ../genomicsdb_1.5.5-1_source.changes +I: user script /srv/workspace/pbuilder/3281456/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/3281456/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/genomicsdb-1.5.5/ && 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 > ../genomicsdb_1.5.5-1_source.changes dpkg-buildpackage: info: source package genomicsdb dpkg-buildpackage: info: source version 1.5.5-1 dpkg-buildpackage: info: source distribution unstable @@ -3041,8 +3077,8 @@ command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. --- Configuring done (2.9s) --- Generating done (0.3s) +-- Configuring done (3.6s) +-- Generating done (0.4s) CMake Warning: Manually-specified variables were not used by the project: @@ -3105,8 +3141,8 @@ command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. --- Configuring done (0.6s) --- Generating done (0.7s) +-- Configuring done (0.8s) +-- Generating done (0.8s) -- Build files have been written to: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu # Configuring the Java part using Maven. # First we put the arch triplet in d/maven.properties for the tests. @@ -3118,11 +3154,11 @@ mh_patchpoms -plibgenomicsdb-java --debian-build --keep-pom-version --maven-repo=/build/reproducible-path/genomicsdb-1.5.5/debian/maven-repo make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' jh_linkjars -O--buildsystem=cmake -Duplicate specification "unlink|u" for option "u" +Duplicate specification "u=s" for option "u" debian/rules override_dh_auto_build-arch make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' dh_auto_build - cd obj-x86_64-linux-gnu && make -j12 "INSTALL=install --strip-program=true" VERBOSE=1 + cd obj-x86_64-linux-gnu && make -j16 "INSTALL=install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/genomicsdb-1.5.5 -B/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu//CMakeFiles/progress.marks @@ -3132,97 +3168,119 @@ make -f genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build.make genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/depend make -f CMakeFiles/protobuf_ep.dir/build.make CMakeFiles/protobuf_ep.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/CMakeFiles/protobuf_ep.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f CMakeFiles/protobuf_ep.dir/build.make CMakeFiles/protobuf_ep.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build.make genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'CMakeFiles/protobuf_ep.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build.make genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build.make genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 1%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array.cc.o +[ 1%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kstring.c.o [ 1%] Built target protobuf_ep -[ 1%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o -[ 1%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o -[ 2%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kstring.c.o -[ 2%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o -[ 2%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/array/array_iterator.cc -[ 2%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/knetfile.c.o +[ 1%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/knetfile.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kstring.c.o -MF CMakeFiles/genomicsdb-hts.dir/kstring.c.o.d -o CMakeFiles/genomicsdb-hts.dir/kstring.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/kstring.c +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/knetfile.c.o -MF CMakeFiles/genomicsdb-hts.dir/knetfile.c.o.d -o CMakeFiles/genomicsdb-hts.dir/knetfile.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/knetfile.c +[ 2%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile.c.o +[ 2%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/faidx.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile.c.o -MF CMakeFiles/genomicsdb-hts.dir/hfile.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hfile.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile.c +[ 2%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/bgzf.c.o make -f src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build.make src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/depend -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE 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/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/faidx.c +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/header.c.o -MF CMakeFiles/genomicsdb-hts.dir/header.c.o.d -o CMakeFiles/genomicsdb-hts.dir/header.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/header.c +[ 4%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o +[ 5%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/array/array_iterator.cc +[ 5%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/array/array_read_state.cc +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o -MF CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile_libcurl.c +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security 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/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hts.c make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build.make src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 3%] Generating source/header files from .proto files +[ 5%] Generating source/header files from .proto files cd /build/reproducible-path/genomicsdb-1.5.5/src/resources && /usr/bin/protoc --cpp_out=/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources genomicsdb_coordinates.proto genomicsdb_callsets_mapping.proto genomicsdb_export_config.proto genomicsdb_import_config.proto genomicsdb_vid_mapping.proto -[ 4%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb_utils.cc +/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile_libcurl.c: In function 'libcurl_open': +/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile_libcurl.c:1335:9: warning: 'CURLINFO_CONTENT_LENGTH_DOWNLOAD' is deprecated: since 7.55.0. Use CURLINFO_CONTENT_LENGTH_DOWNLOAD_T [-Wdeprecated-declarations] + 1335 | if (curl_easy_getinfo(fp->easy, CURLINFO_CONTENT_LENGTH_DOWNLOAD, + | ^~ +In file included from /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile_libcurl.c:47: +/usr/include/x86_64-linux-gnu/curl/curl.h:2932:3: note: declared here + 2932 | CURLINFO_CONTENT_LENGTH_DOWNLOAD + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +[ 5%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts_os.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts_os.c.o -MF CMakeFiles/genomicsdb-hts.dir/hts_os.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hts_os.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hts_os.c +[ 6%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_schema.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_schema.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_schema.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_schema.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/array/array_schema.cc +[ 6%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/md5.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/md5.c.o -MF CMakeFiles/genomicsdb-hts.dir/md5.c.o.d -o CMakeFiles/genomicsdb-hts.dir/md5.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/md5.c +[ 6%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_read_state.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_read_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_read_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_read_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/array/array_sorted_read_state.cc +[ 6%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/array/array_sorted_write_state.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 4%] Built target PROTOBUF_GENERATED_CXX_TARGET -[ 4%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/bgzf.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/bgzf.c.o -MF CMakeFiles/genomicsdb-hts.dir/bgzf.c.o.d -o CMakeFiles/genomicsdb-hts.dir/bgzf.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/bgzf.c -[ 4%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec.cc +[ 6%] Built target PROTOBUF_GENERATED_CXX_TARGET +[ 7%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/multipart.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/multipart.c.o -MF CMakeFiles/genomicsdb-hts.dir/multipart.c.o.d -o CMakeFiles/genomicsdb-hts.dir/multipart.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/multipart.c +[ 7%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc +[ 8%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb_utils.cc +[ 8%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/probaln.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/probaln.c.o -MF CMakeFiles/genomicsdb-hts.dir/probaln.c.o.d -o CMakeFiles/genomicsdb-hts.dir/probaln.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/probaln.c +[ 8%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/realn.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/realn.c.o -MF CMakeFiles/genomicsdb-hts.dir/realn.c.o.d -o CMakeFiles/genomicsdb-hts.dir/realn.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/realn.c make -f src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build.make src/main/CMakeFiles/GenomicsDB_library_object_files.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build.make src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 4%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations.cc.o +[ 8%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations.cc.o -MF 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-I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec.cc +[ 8%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_blosc.cc +[ 9%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_filter.cc +[ 9%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/regidx.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/regidx.c.o -MF CMakeFiles/genomicsdb-hts.dir/regidx.c.o.d -o CMakeFiles/genomicsdb-hts.dir/regidx.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/regidx.c +[ 9%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o +[ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/region.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc -[ 5%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/errmod.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/errmod.c.o -MF CMakeFiles/genomicsdb-hts.dir/errmod.c.o.d -o CMakeFiles/genomicsdb-hts.dir/errmod.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/errmod.c -In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations.cc:24: -/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 290 | : std::iterator - | ^~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, - from /usr/include/c++/14/string:47, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:27: -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -[ 5%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/faidx.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/faidx.c.o -MF CMakeFiles/genomicsdb-hts.dir/faidx.c.o.d -o CMakeFiles/genomicsdb-hts.dir/faidx.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/faidx.c +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/region.c.o -MF CMakeFiles/genomicsdb-hts.dir/region.c.o.d -o CMakeFiles/genomicsdb-hts.dir/region.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/region.c +[ 10%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_filter_bit_shuffle.cc +[ 10%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations_columnar.cc +[ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/sam.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/sam.c.o -MF CMakeFiles/genomicsdb-hts.dir/sam.c.o.d -o CMakeFiles/genomicsdb-hts.dir/sam.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/sam.c +[ 10%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_filter_delta_encode.cc /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc: In function 'int tiledb_array_set_schema(TileDB_ArraySchema*, const char*, const char**, int, int64_t, int, const int*, const int*, const int*, const int*, const int*, int, const char**, int, const void*, size_t, const void*, size_t, int, const int*)': /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc:409:22: warning: argument 1 range [18446744065119617024, 18446744073709551612] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 409 | (int*) malloc((attribute_num)*sizeof(int)); @@ -3266,15 +3324,12 @@ /usr/include/stdlib.h:672:14: note: in a call to allocation function 'void* malloc(size_t)' declared here 672 | extern void *malloc (size_t __size) __THROW __attribute_malloc__ | ^~~~~~ -[ 5%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations_columnar.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:25: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -3291,6 +3346,8 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ +[ 11%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf_columnar.cc /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc: In function 'int tiledb_metadata_set_schema(TileDB_MetadataSchema*, const char*, const char**, int, int64_t, const int*, const int*, const int*, const int*)': /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc:1131:22: warning: argument 1 range [18446744065119617024, 18446744073709551612] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 1131 | (int*) malloc((attribute_num)*sizeof(int)); @@ -3298,14 +3355,35 @@ /usr/include/stdlib.h:672:14: note: in a call to allocation function 'void* malloc(size_t)' declared here 672 | extern void *malloc (size_t __size) __THROW __attribute_malloc__ | ^~~~~~ -[ 5%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/header.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/header.c.o -MF CMakeFiles/genomicsdb-hts.dir/header.c.o.d -o CMakeFiles/genomicsdb-hts.dir/header.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/header.c -[ 6%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf_columnar.cc -[ 6%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o +[ 11%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_lz4.cc +[ 12%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_gzip.cc +[ 12%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc -[ 7%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile.c.o -MF CMakeFiles/genomicsdb-hts.dir/hfile.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hfile.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile.c +In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:25: +/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 290 | : std::iterator + | ^~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, + from /usr/include/c++/14/string:47, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:27: +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, @@ -3328,17 +3406,8 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations.cc: In member function 'virtual void AlleleCountOperator::operate_on_columnar_cell(const GenomicsDBColumnarCell&, const VariantQueryConfig&, const VariantArraySchema&)': -/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations.cc:984:36: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] - 984 | auto REF_ALT_pair = std::move(std::pair( - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 985 | std::string(REF_ptr, REF_length), - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 986 | std::string(ALT_ptr+m_cell_ALT_offsets[ALT_idx], - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 987 | m_cell_ALT_offsets[ALT_idx+1]-m_cell_ALT_offsets[ALT_idx]-1))); //-1 to ignore delim char - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations.cc:984:36: note: remove 'std::move' call +[ 12%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_rle.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, @@ -3361,8 +3430,29 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 7%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o +[ 12%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o -MF CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o.d -o CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/synced_bcf_reader.c +[ 12%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_cell.cc +[ 13%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o -MF CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o.d -o CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/vcf_sweep.c +[ 14%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_zstd.cc +/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations.cc: In member function 'virtual void AlleleCountOperator::operate_on_columnar_cell(const GenomicsDBColumnarCell&, const VariantQueryConfig&, const VariantArraySchema&)': +/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations.cc:984:36: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] + 984 | auto REF_ALT_pair = std::move(std::pair( + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 985 | std::string(REF_ptr, REF_length), + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 986 | std::string(ALT_ptr+m_cell_ALT_offsets[ALT_idx], + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 987 | m_cell_ALT_offsets[ALT_idx+1]-m_cell_ALT_offsets[ALT_idx]-1))); //-1 to ignore delim char + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations.cc:984:36: note: remove 'std::move' call +[ 15%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_storage_manager.cc +[ 15%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_field_data.cc /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc: In member function 'void BroadCombinedGVCFOperator::handle_INFO_fields(const Variant&)': /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:622:37: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 622 | auto stringified = std::move(m_field_handlers[bcf_ht_type]->stringify_2D_vector(*(BCF_INFO_GET_FIELD_INFO_PTR(curr_tuple)))); @@ -3385,24 +3475,6 @@ 1106 | auto null_PL_ptr = std::move(std::unique_ptr(nullptr)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:1106:37: note: remove 'std::move' call -[ 7%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o -MF CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile_libcurl.c -/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile_libcurl.c: In function 'libcurl_open': -/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile_libcurl.c:1335:9: warning: 'CURLINFO_CONTENT_LENGTH_DOWNLOAD' is deprecated: since 7.55.0. Use CURLINFO_CONTENT_LENGTH_DOWNLOAD_T [-Wdeprecated-declarations] - 1335 | if (curl_easy_getinfo(fp->easy, CURLINFO_CONTENT_LENGTH_DOWNLOAD, - | ^~ -In file included from /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile_libcurl.c:47: -/usr/include/x86_64-linux-gnu/curl/curl.h:2932:3: note: declared here - 2932 | CURLINFO_CONTENT_LENGTH_DOWNLOAD - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -[ 7%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o -MF CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile_net.c -[ 7%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_blosc.cc -[ 8%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_storage_manager.cc -[ 9%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_filter.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc:25: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] @@ -3422,8 +3494,12 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts.c.o -MF CMakeFiles/genomicsdb-hts.dir/hts.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hts.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hts.c +[ 15%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/tbx.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/tbx.c.o -MF CMakeFiles/genomicsdb-hts.dir/tbx.c.o.d -o CMakeFiles/genomicsdb-hts.dir/tbx.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/tbx.c +[ 15%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_array_schema.cc +[ 15%] Building C object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cc -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -std=gnu11 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle/bitshuffle_core.c In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_cell.cc:23: @@ -3442,8 +3518,26 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 10%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_field_data.cc +[ 16%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_field_handler.cc +[ 16%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/textutils.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/textutils.c.o -MF CMakeFiles/genomicsdb-hts.dir/textutils.c.o.d -o CMakeFiles/genomicsdb-hts.dir/textutils.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/textutils.c +[ 16%] Building C object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cc -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -std=gnu11 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle/iochain.c +In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_field_data.cc:23: +/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 290 | : std::iterator + | ^~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_construct.h:61, + from /usr/include/c++/14/bits/stl_tempbuf.h:61, + from /usr/include/c++/14/memory:66, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:26: +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, @@ -3463,26 +3557,12 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts_os.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts_os.c.o -MF CMakeFiles/genomicsdb-hts.dir/hts_os.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hts_os.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hts_os.c -[ 10%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_array_schema.cc -In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_field_data.cc:23: -/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 290 | : std::iterator - | ^~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_construct.h:61, - from /usr/include/c++/14/bits/stl_tempbuf.h:61, - from /usr/include/c++/14/memory:66, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:26: -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -[ 10%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_filter_bit_shuffle.cc +[ 16%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/expressions/expression.cc +[ 17%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o -MF CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o.d -o CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/thread_pool.c +[ 17%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, @@ -3503,22 +3583,6 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/md5.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/md5.c.o -MF CMakeFiles/genomicsdb-hts.dir/md5.c.o.d -o CMakeFiles/genomicsdb-hts.dir/md5.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/md5.c -[ 11%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_field_handler.cc -[ 12%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/multipart.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/multipart.c.o -MF CMakeFiles/genomicsdb-hts.dir/multipart.c.o.d -o CMakeFiles/genomicsdb-hts.dir/multipart.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/multipart.c -[ 12%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/probaln.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/probaln.c.o -MF CMakeFiles/genomicsdb-hts.dir/probaln.c.o.d -o CMakeFiles/genomicsdb-hts.dir/probaln.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/probaln.c -[ 12%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_filter_delta_encode.cc -[ 13%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_gzip.cc -[ 13%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/realn.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/realn.c.o -MF CMakeFiles/genomicsdb-hts.dir/realn.c.o.d -o CMakeFiles/genomicsdb-hts.dir/realn.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/realn.c -[ 13%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/regidx.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/regidx.c.o -MF CMakeFiles/genomicsdb-hts.dir/regidx.c.o.d -o CMakeFiles/genomicsdb-hts.dir/regidx.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/regidx.c In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, @@ -3541,20 +3605,12 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 14%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/region.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/region.c.o -MF CMakeFiles/genomicsdb-hts.dir/region.c.o.d -o CMakeFiles/genomicsdb-hts.dir/region.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/region.c -[ 14%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils 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CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant.cc -[ 14%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o +[ 17%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf.c.o -MF CMakeFiles/genomicsdb-hts.dir/vcf.c.o.d -o CMakeFiles/genomicsdb-hts.dir/vcf.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/vcf.c +[ 17%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/query_variants.cc -[ 14%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/sam.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/sam.c.o -MF CMakeFiles/genomicsdb-hts.dir/sam.c.o.d -o CMakeFiles/genomicsdb-hts.dir/sam.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/sam.c -[ 14%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_lz4.cc -[ 14%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_rle.cc -[ 15%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_zstd.cc +[ 18%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/fragment/book_keeping.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, @@ -3576,10 +3632,8 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 16%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_columnar_field.cc -[ 16%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o -MF CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o.d -o CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/synced_bcf_reader.c +[ 18%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/fragment/fragment.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, @@ -3601,12 +3655,16 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 16%] Building C object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cc -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -std=gnu11 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle/bitshuffle_core.c -[ 16%] Building C object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cc -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -std=gnu11 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle/iochain.c -[ 16%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/expressions/expression.cc +[ 18%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/fragment/read_state.cc +[ 18%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o -MF CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o.d -o CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/vcfutils.c +[ 19%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_columnar_field.cc +[ 20%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o +[ 21%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/fragment/write_state.cc +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_codecs.c In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_columnar_field.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator @@ -3623,8 +3681,32 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 16%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o +[ 21%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/metadata/metadata.cc +[ 21%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_decode.c +[ 21%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/metadata/metadata_iterator.cc +[ 22%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/error.cc +[ 22%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/hilbert_curve.cc +[ 22%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_iterators.cc +[ 22%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_encode.c +[ 22%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc +[ 22%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_external.c +[ 22%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader_text_file.cc +[ 22%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/mem_utils.cc +[ 23%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_index.c +[ 24%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/progress_bar.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_iterators.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] @@ -3642,38 +3724,14 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 17%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o -MF CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o.d -o CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/vcf_sweep.c -[ 17%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/tbx.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/tbx.c.o -MF CMakeFiles/genomicsdb-hts.dir/tbx.c.o.d -o CMakeFiles/genomicsdb-hts.dir/tbx.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/tbx.c -[ 17%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/textutils.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/textutils.c.o -MF CMakeFiles/genomicsdb-hts.dir/textutils.c.o.d -o CMakeFiles/genomicsdb-hts.dir/textutils.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/textutils.c -[ 18%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o -MF CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o.d -o CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/thread_pool.c -[ 19%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/fragment/book_keeping.cc -[ 19%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf.c.o -MF CMakeFiles/genomicsdb-hts.dir/vcf.c.o.d -o CMakeFiles/genomicsdb-hts.dir/vcf.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/vcf.c -[ 19%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/fragment/fragment.cc -[ 19%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o -MF CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o.d -o CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/vcfutils.c -[ 20%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_codecs.c -[ 20%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/fragment/read_state.cc -[ 20%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc -[ 20%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader_text_file.cc -[ 20%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_decode.c -[ 21%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/fragment/write_state.cc -[ 21%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/metadata/metadata.cc -[ 22%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o +[ 25%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/load_operators.cc +[ 25%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_io.c +[ 25%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/uri.cc +[ 25%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/genomicsdb_importer.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, @@ -3695,12 +3753,14 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 22%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/metadata/metadata_iterator.cc +[ 25%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader_file_base.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader_text_file.cc:32: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/load_operators.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -3712,28 +3772,15 @@ from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader_file_base.h:27, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader_text_file.h:33, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader_text_file.cc:30: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/vid_mapper.h:27, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:26: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc: In member function 'std::vector GenomicsDBMultiDVectorField::parse_and_store_numeric(const char*, size_t)': -/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:436:50: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] - 436 | auto total_size_of_multi_d_data_vec = std::move(GenomicsDBMultiDVectorField::parse_and_store_numeric( - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 437 | m_rw_field_data, *m_field_info_ptr, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 438 | str, str_length)); - | ~~~~~~~~~~~~~~~~~ -/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:436:50: note: remove 'std::move' call In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/load_operators.cc:24: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader_text_file.cc:32: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -3745,23 +3792,24 @@ from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/vid_mapper.h:27, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:26: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader_file_base.h:27, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader_text_file.h:33, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader_text_file.cc:30: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 22%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_encode.c -[ 22%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/genomicsdb_importer.cc -[ 22%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_external.c -[ 22%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader_file_base.cc -[ 23%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/error.cc -[ 24%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_index.c +/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc: In member function 'std::vector GenomicsDBMultiDVectorField::parse_and_store_numeric(const char*, size_t)': +/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:436:50: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] + 436 | auto total_size_of_multi_d_data_vec = std::move(GenomicsDBMultiDVectorField::parse_and_store_numeric( + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 437 | m_rw_field_data, *m_field_info_ptr, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 438 | str, str_length)); + | ~~~~~~~~~~~~~~~~~ +/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:436:50: note: remove 'std::move' call +[ 25%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/utils.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, @@ -3786,18 +3834,35 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 25%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader.cc -[ 25%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_io.c -[ 25%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/memory_measure.cc -[ 25%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/hilbert_curve.cc [ 25%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_samtools.c -[ 25%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o +[ 26%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader.cc +[ 27%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_stats.c +[ 27%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/memory_measure.cc +[ 27%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/mFILE.c +[ 27%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/histogram.cc +[ 27%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/open_trace_file.c +[ 28%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/pooled_alloc.c +[ 28%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/rANS_static.c +[ 28%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/string_alloc.c +[ 29%] Linking C shared library libgenomicsdb-hts.so +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cmake -E cmake_link_script CMakeFiles/genomicsdb-hts.dir/link.txt --verbose=1 +/usr/bin/cc -fPIC -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,--dependency-file=CMakeFiles/genomicsdb-hts.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libgenomicsdb-hts.so -o libgenomicsdb-hts.so "CMakeFiles/genomicsdb-hts.dir/kfunc.c.o" "CMakeFiles/genomicsdb-hts.dir/knetfile.c.o" "CMakeFiles/genomicsdb-hts.dir/kstring.c.o" "CMakeFiles/genomicsdb-hts.dir/bcf_sr_sort.c.o" "CMakeFiles/genomicsdb-hts.dir/bgzf.c.o" "CMakeFiles/genomicsdb-hts.dir/errmod.c.o" "CMakeFiles/genomicsdb-hts.dir/faidx.c.o" "CMakeFiles/genomicsdb-hts.dir/header.c.o" "CMakeFiles/genomicsdb-hts.dir/hfile.c.o" "CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o" "CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o" "CMakeFiles/genomicsdb-hts.dir/hts.c.o" "CMakeFiles/genomicsdb-hts.dir/hts_os.c.o" "CMakeFiles/genomicsdb-hts.dir/md5.c.o" "CMakeFiles/genomicsdb-hts.dir/multipart.c.o" "CMakeFiles/genomicsdb-hts.dir/probaln.c.o" "CMakeFiles/genomicsdb-hts.dir/realn.c.o" "CMakeFiles/genomicsdb-hts.dir/regidx.c.o" "CMakeFiles/genomicsdb-hts.dir/region.c.o" "CMakeFiles/genomicsdb-hts.dir/sam.c.o" "CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o" "CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o" "CMakeFiles/genomicsdb-hts.dir/tbx.c.o" "CMakeFiles/genomicsdb-hts.dir/textutils.c.o" "CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o" "CMakeFiles/genomicsdb-hts.dir/vcf.c.o" "CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o" /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/liblzma.so +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 29%] Built target genomicsdb-hts +[ 30%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_buffer.cc +[ 30%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_fs.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, @@ -3816,41 +3881,34 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 25%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/mem_utils.cc -[ 26%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_stats.c -[ 26%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/mFILE.c -[ 26%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/open_trace_file.c -[ 27%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 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-I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o -MF 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-I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o -MF 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-I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_manager_config.cc +[ 31%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_posixfs.cc +[ 32%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper_pb.cc -[ 29%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/rANS_static.c -[ 29%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o +[ 32%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/lut.cc -[ 29%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment 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29%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/string_alloc.c -[ 30%] Linking C shared library libgenomicsdb-hts.so -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cmake -E cmake_link_script CMakeFiles/genomicsdb-hts.dir/link.txt --verbose=1 -/usr/bin/cc -fPIC -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,--dependency-file=CMakeFiles/genomicsdb-hts.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libgenomicsdb-hts.so -o libgenomicsdb-hts.so "CMakeFiles/genomicsdb-hts.dir/kfunc.c.o" "CMakeFiles/genomicsdb-hts.dir/knetfile.c.o" "CMakeFiles/genomicsdb-hts.dir/kstring.c.o" "CMakeFiles/genomicsdb-hts.dir/bcf_sr_sort.c.o" "CMakeFiles/genomicsdb-hts.dir/bgzf.c.o" "CMakeFiles/genomicsdb-hts.dir/errmod.c.o" "CMakeFiles/genomicsdb-hts.dir/faidx.c.o" "CMakeFiles/genomicsdb-hts.dir/header.c.o" "CMakeFiles/genomicsdb-hts.dir/hfile.c.o" "CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o" "CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o" "CMakeFiles/genomicsdb-hts.dir/hts.c.o" "CMakeFiles/genomicsdb-hts.dir/hts_os.c.o" "CMakeFiles/genomicsdb-hts.dir/md5.c.o" "CMakeFiles/genomicsdb-hts.dir/multipart.c.o" "CMakeFiles/genomicsdb-hts.dir/probaln.c.o" "CMakeFiles/genomicsdb-hts.dir/realn.c.o" "CMakeFiles/genomicsdb-hts.dir/regidx.c.o" "CMakeFiles/genomicsdb-hts.dir/region.c.o" "CMakeFiles/genomicsdb-hts.dir/sam.c.o" "CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o" "CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o" "CMakeFiles/genomicsdb-hts.dir/tbx.c.o" "CMakeFiles/genomicsdb-hts.dir/textutils.c.o" "CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o" "CMakeFiles/genomicsdb-hts.dir/vcf.c.o" "CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o" /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/liblzma.so -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 30%] Built target genomicsdb-hts -[ 30%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o +[ 32%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o cd 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-I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/known_field_info.cc -[ 30%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage 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-DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc +[ 33%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper_sql.cc +[ 33%] Building C object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cc -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -std=gnu11 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4/lz4.c +[ 33%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/timer.cc +[ 33%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/genomicsdb_logger.cc +[ 34%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc +[ 34%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/vcf_adapter.cc +[ 34%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/genomicsdb_bcf_generator.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, @@ -3874,10 +3932,6 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 32%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_fs.cc -[ 32%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_manager.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, @@ -3898,10 +3952,6 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 32%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_manager_config.cc -[ 33%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_posixfs.cc /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc: In member function 'void VidMapper::parse_string_length_descriptor(const char*, const char*, size_t, FieldLengthDescriptor&, size_t)': /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc:757:47: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 757 | auto length_value_upper_case_str = std::move(std::string(length_value_str)); @@ -3912,26 +3962,8 @@ 1269 | auto class_name = std::move(std::string(vcf_field_class_array[i].GetString())); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc:1269:40: note: remove 'std::move' call -[ 33%] Building C object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cc -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -std=gnu11 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4/lz4.c -[ 33%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper_sql.cc -[ 33%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/timer.cc -[ 33%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/genomicsdb_logger.cc -[ 34%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc -[ 34%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/vcf_adapter.cc -[ 34%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/genomicsdb_bcf_generator.cc [ 35%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/vcf2binary.cc -[ 35%] Building C object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/cc -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb 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-Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/hfile_genomicsdb.c -[ 35%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/htslib_fs_adapter.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, @@ -3955,6 +3987,12 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 35%] Built target TILEDB_CORE_OBJECTS +[ 35%] Building C object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/cc -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations 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/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/hfile_genomicsdb.c +[ 35%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations 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CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/htslib_fs_adapter.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] @@ -3974,8 +4012,46 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 36%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o +make -f 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'/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 35%] Linking CXX static library libgenomicsdb-tiledb.a +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cmake -P CMakeFiles/tiledb_static.dir/cmake_clean_target.cmake +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_static.dir/link.txt --verbose=1 +make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu 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-I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/variant_query_config.cc +[ 37%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o +cd 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37%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o -c 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CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 37%] Built target tiledb_static +make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build +[ 37%] Built target tiledb_shared +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 38%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/pb_config.cc +[ 38%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o -MF CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o.d -o CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/array/test_array_schema.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, @@ -3997,10 +4073,18 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ +make -f genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 38%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o -MF CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o.d -o CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/benchmark/test_print_array_schema.cc +[ 39%] Linking CXX executable test_print_array_schema +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_print_array_schema.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_print_array_schema.dir/link.d CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o -o test_print_array_schema ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 36%] Built target TILEDB_CORE_OBJECTS -[ 36%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/genomicsdb_config_base.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, @@ -4015,48 +4099,21 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/depend +[ 39%] Built target test_print_array_schema +make -f genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build +make -f genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 36%] Linking CXX static library libgenomicsdb-tiledb.a -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cmake -P CMakeFiles/tiledb_static.dir/cmake_clean_target.cmake -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_static.dir/link.txt --verbose=1 +[ 39%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o -MF CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o.d -o CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/benchmark/test_print_book_keeping.cc /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/genomicsdb_config_base.cc: In member function 'const bool GenomicsDBConfigBase::has_array_name(int) const': /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/genomicsdb_config_base.cc:101:53: warning: comparison of integer expressions of different signedness: 'std::vector >::size_type' {aka 'long unsigned int'} and 'const int' [-Wsign-compare] 101 | (!m_single_array_name && m_array_names.size() > rank)) { | ~~~~~~~~~~~~~~~~~~~~~^~~~~~ -make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 37%] Linking CXX shared library libgenomicsdb-tiledb.so -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_shared.dir/link.txt --verbose=1 -/usr/bin/ar qc libgenomicsdb-tiledb.a CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_schema.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_read_state.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o 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-make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 37%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations 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-I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o -MF CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o.d -o CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/array/test_array_schema.cc /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/json_config.cc: In member function 'rapidjson::Document GenomicsDBConfigBase::read_from_file(const std::string&, int)': /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/json_config.cc:193:43: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 193 | rapidjson::Document json_doc = std::move(parse_json_file(filename)); @@ -4067,10 +4124,28 @@ 704 | rapidjson::Document json_doc = std::move(GenomicsDBConfigBase::read_from_file(filename, rank)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/json_config.cc:704:43: note: remove 'std::move' call -[ 38%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o +[ 39%] Linking CXX executable test_print_book_keeping +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && 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-I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb.cc -[ 39%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o +[ 39%] Linking CXX executable test_array_schema +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_array_schema.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_array_schema.dir/link.d CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o -o test_array_schema ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 39%] Built target test_array_schema +[ 40%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_field.cc +make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 40%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o -MF CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o.d -o CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/benchmark/test_sparse_array_benchmark.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, @@ -4089,48 +4164,14 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 39%] Linking CXX executable test_array_schema -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_array_schema.dir/link.txt --verbose=1 -make -f genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_array_schema.dir/link.d CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o -o test_array_schema ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 39%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o -MF CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o.d -o CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/benchmark/test_print_array_schema.cc -[ 39%] Built target test_array_schema -make -f genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 39%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o -[ 39%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o -MF CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o.d -o CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/benchmark/test_print_book_keeping.cc -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o -MF CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o.d -o CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/benchmark/test_sparse_array_benchmark.cc make -f genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 39%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o +[ 40%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o -MF CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o.d -o CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc -[ 40%] Linking CXX executable test_print_array_schema -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_print_array_schema.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_print_array_schema.dir/link.d CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o -o test_print_array_schema ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 40%] Built target test_print_array_schema make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/DependInfo.cmake "--color=" @@ -4139,11 +4180,6 @@ make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 41%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o -MF CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o.d -o CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/c_api/test_array_schema_api.cc -[ 41%] Linking CXX executable test_print_book_keeping -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_print_book_keeping.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_print_book_keeping.dir/link.d CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o -o test_print_book_keeping ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 41%] Built target test_print_book_keeping make -f genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/DependInfo.cmake "--color=" @@ -4152,14 +4188,32 @@ make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 41%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o -MF CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o.d -o CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/c_api/test_dense_array_api.cc -[ 41%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o +make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 42%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o -MF CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o.d -o CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/c_api/test_sparse_array_api.cc +make -f genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 42%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o -MF CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o.d -o CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/c_api/test_tiledb_utils.cc +make -f genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 42%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o -MF CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o.d -o CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/codec/test_codec.cc +[ 42%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_plink.cc -[ 41%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_utils.cc -[ 41%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_json_processor.cc -[ 42%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_coordinates.pb.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, @@ -4177,6 +4231,8 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ +[ 43%] Linking CXX executable test_codec +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_codec.dir/link.txt --verbose=1 In file included from /usr/include/c++/14/bits/basic_string.h:47, from /usr/include/c++/14/string:54: In function 'constexpr std::size_t std::__sv_check(size_t, size_t, const char*)', @@ -4189,32 +4245,6 @@ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb.cc:806:26: note: 'pos' was declared here 806 | std::string::size_type pos; | ^~~ -make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o -MF CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o.d -o CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/c_api/test_sparse_array_api.cc -[ 43%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_callsets_mapping.pb.cc -make -f genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o -MF CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o.d -o CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/c_api/test_tiledb_utils.cc -make -f genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o -MF CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o.d -o CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/codec/test_codec.cc make -f genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/DependInfo.cmake "--color=" @@ -4223,6 +4253,11 @@ make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o -MF CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o.d -o CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/codec/test_codec_filter.cc +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_codec.dir/link.d CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o -o test_codec ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 43%] Built target test_codec +[ 43%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_utils.cc make -f genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/DependInfo.cmake "--color=" @@ -4231,50 +4266,29 @@ make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o -MF CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o.d -o CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/expressions/test_expressions.cc -[ 44%] Linking CXX executable test_array_iterator -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_array_iterator.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_array_iterator.dir/link.d CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o -o test_array_iterator ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 45%] Linking CXX executable test_sparse_array_benchmark -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_sparse_array_benchmark.dir/link.txt --verbose=1 -[ 45%] Built target test_array_iterator -[ 45%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_export_config.pb.cc -[ 45%] Linking CXX executable test_array_schema_api -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_array_schema_api.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_sparse_array_benchmark.dir/link.d CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o -o test_sparse_array_benchmark ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 45%] Built target test_sparse_array_benchmark make -f genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 46%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o +[ 44%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o -MF CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o.d -o CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/expressions/test_filter_api.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_array_schema_api.dir/link.d CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o -o test_array_schema_api ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 46%] Built target test_array_schema_api make -f genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 46%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o +[ 44%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o -MF CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o.d -o CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/misc/test_mem_utils.cc -[ 47%] Linking CXX executable test_codec -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_codec.dir/link.txt --verbose=1 -[ 48%] Linking CXX executable test_dense_array_api -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_dense_array_api.dir/link.txt --verbose=1 make -f genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 48%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/src/misc/test_uri.cc.o +[ 44%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/src/misc/test_uri.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/src/misc/test_uri.cc.o -MF CMakeFiles/test_uri.dir/src/misc/test_uri.cc.o.d -o CMakeFiles/test_uri.dir/src/misc/test_uri.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/misc/test_uri.cc make -f genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' @@ -4282,139 +4296,123 @@ make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 49%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o +[ 45%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o -MF CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o.d -o CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_codec.dir/link.d CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o -o test_codec ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 49%] Built target test_codec -[ 50%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_import_config.pb.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_dense_array_api.dir/link.d CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o -o test_dense_array_api ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 50%] Built target test_dense_array_api +[ 46%] Linking CXX executable test_array_iterator +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_array_iterator.dir/link.txt --verbose=1 +[ 47%] Linking CXX executable test_sparse_array_benchmark +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_sparse_array_benchmark.dir/link.txt --verbose=1 make -f genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 51%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o +[ 48%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o -MF CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o.d -o CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/storage_manager/test_posixfs.cc -[ 51%] Linking CXX executable test_codec_filter -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_codec_filter.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_codec_filter.dir/link.d CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o -o test_codec_filter ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 51%] Built target test_codec_filter -[ 51%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_vid_mapping.pb.cc -[ 51%] Linking CXX executable test_mem_utils -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_mem_utils.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_mem_utils.dir/link.d CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o -o test_mem_utils ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_array_iterator.dir/link.d CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o -o test_array_iterator ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 51%] Built target test_mem_utils +[ 48%] Built target test_array_iterator make -f genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 51%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o +[ 48%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o -MF CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o.d -o CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/storage_manager/test_storage_buffer.cc -[ 51%] Linking CXX executable test_filter_api -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_filter_api.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_sparse_array_benchmark.dir/link.d CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o -o test_sparse_array_benchmark ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 48%] Built target test_sparse_array_benchmark make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 51%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o +[ 48%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o -MF CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o.d -o CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_3d.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_filter_api.dir/link.d CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o -o test_filter_api ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx +[ 48%] Linking CXX executable test_codec_filter +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_codec_filter.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_codec_filter.dir/link.d CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o -o test_codec_filter ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 48%] Built target test_codec_filter +[ 48%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_json_processor.cc +[ 48%] Linking CXX executable test_mem_utils +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_mem_utils.dir/link.txt --verbose=1 +[ 49%] Linking CXX executable tiledb_array_3d +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_3d.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_mem_utils.dir/link.d CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o -o test_mem_utils ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 51%] Built target test_filter_api +[ 49%] Built target test_mem_utils make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 51%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o +[ 49%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o -MF CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o.d -o CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_aio_read_dense.cc -[ 51%] Linking CXX executable tiledb_array_aio_read_dense +[ 49%] Linking CXX executable tiledb_array_aio_read_dense cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_aio_read_dense.dir/link.txt --verbose=1 -[ 52%] Linking CXX executable tiledb_array_3d -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_3d.dir/link.txt --verbose=1 +[ 49%] Linking CXX executable test_array_schema_api +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_array_schema_api.dir/link.txt --verbose=1 +[ 49%] Linking CXX executable test_filter_api +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_filter_api.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_3d.dir/link.d CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o -o tiledb_array_3d ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 50%] Linking CXX executable test_dense_array_api +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_dense_array_api.dir/link.txt --verbose=1 +[ 50%] Built target tiledb_array_3d make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/DependInfo.cmake "--color=" -[ 53%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o +[ 51%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o -MF CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o.d -o CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_aio_write_dense.cc -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 53%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o -MF CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o.d -o CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_consolidate.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_aio_read_dense.dir/link.d CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o -o tiledb_array_aio_read_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_3d.dir/link.d CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o -o tiledb_array_3d ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +[ 51%] Built target tiledb_array_aio_read_dense +[ 52%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_coordinates.pb.cc +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_filter_api.dir/link.d CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o -o test_filter_api ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 53%] Built target tiledb_array_aio_read_dense -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/DependInfo.cmake "--color=" +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_array_schema_api.dir/link.d CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o -o test_array_schema_api ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_dense_array_api.dir/link.d CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o -o test_dense_array_api ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 52%] Built target test_dense_array_api +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/DependInfo.cmake "--color=" +[ 52%] Built target test_filter_api +[ 52%] Built target test_array_schema_api +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 53%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o -MF CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o.d -o CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_create_dense.cc -[ 53%] Built target tiledb_array_3d make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/depend +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 53%] Linking CXX executable tiledb_array_aio_write_dense -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_aio_write_dense.dir/link.txt --verbose=1 -[ 53%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o -MF CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o.d -o CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_create_sparse.cc -[ 54%] Linking CXX executable tiledb_array_consolidate -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_consolidate.dir/link.txt --verbose=1 -[ 54%] Linking CXX executable tiledb_array_create_dense -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_create_dense.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_aio_write_dense.dir/link.d CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o -o tiledb_array_aio_write_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 55%] Linking CXX executable tiledb_array_create_sparse -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_create_sparse.dir/link.txt --verbose=1 -[ 55%] Built target tiledb_array_aio_write_dense -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 55%] Linking CXX executable test_uri -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_consolidate.dir/link.d CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o -o tiledb_array_consolidate ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_uri.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 55%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o -MF CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o.d -o CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_iterator_dense.cc -[ 55%] Built target tiledb_array_consolidate -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/depend +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 56%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o -MF CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o.d -o CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_iterator_sparse.cc +[ 52%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o -MF CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o.d -o CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_consolidate.cc +[ 52%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o +[ 52%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o -MF CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o.d -o CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_create_dense.cc +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o -MF CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o.d -o CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_create_sparse.cc +[ 52%] Linking CXX executable tiledb_array_aio_write_dense +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_aio_write_dense.dir/link.txt --verbose=1 In file included from /usr/include/string.h:548, from /usr/include/c++/14/cstring:43, from /usr/include/catch2/internal/catch_stringref.hpp:16, @@ -4490,151 +4488,183 @@ /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc:181:19: note: source object 'k' of size 8 181 | double j = 0.1, k = 0.2; | ^ +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_aio_write_dense.dir/link.d CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o -o tiledb_array_aio_write_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 52%] Built target tiledb_array_aio_write_dense +[ 52%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_callsets_mapping.pb.cc +[ 52%] Linking CXX executable tiledb_array_create_dense +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_create_dense.dir/link.txt --verbose=1 +[ 53%] Linking CXX executable tiledb_array_create_sparse +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_create_sparse.dir/link.txt --verbose=1 +[ 53%] Linking CXX executable test_uri +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_uri.dir/link.txt --verbose=1 +[ 54%] Linking CXX executable tiledb_array_consolidate +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_consolidate.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_uri.dir/link.d CMakeFiles/test_uri.dir/src/misc/test_uri.cc.o -o test_uri ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 54%] Built target test_uri +[ 54%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_export_config.pb.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_create_dense.dir/link.d CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o -o tiledb_array_create_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 56%] Built target test_uri +[ 54%] Built target tiledb_array_create_dense +[ 55%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_import_config.pb.cc +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_create_sparse.dir/link.d CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o -o tiledb_array_create_sparse ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 55%] Built target tiledb_array_create_sparse +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_consolidate.dir/link.d CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o -o tiledb_array_consolidate ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 56%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o -MF CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o.d -o CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_iterator_sparse.cc +[ 56%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o +[ 56%] Built target tiledb_array_consolidate +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o -MF CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o.d -o CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_iterator_dense.cc make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/DependInfo.cmake "--color=" -[ 56%] Built target tiledb_array_create_dense +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 56%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o -MF CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o.d -o CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_iterator_sparse_filter.cc +[ 56%] Linking CXX executable tiledb_array_iterator_sparse +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_iterator_sparse.dir/link.txt --verbose=1 +[ 57%] Linking CXX executable tiledb_array_iterator_sparse_filter +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_iterator_sparse_filter.dir/link.txt --verbose=1 +[ 58%] Linking CXX executable test_tiledb_utils +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_tiledb_utils.dir/link.txt --verbose=1 +[ 58%] Linking CXX executable tiledb_array_iterator_dense +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_iterator_dense.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_iterator_sparse_filter.dir/link.d CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o -o tiledb_array_iterator_sparse_filter ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 58%] Built target tiledb_array_iterator_sparse_filter make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/DependInfo.cmake "--color=" +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_iterator_sparse.dir/link.d CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o -o tiledb_array_iterator_sparse ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build +[ 58%] Built target tiledb_array_iterator_sparse make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 56%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o -MF CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o.d -o CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_iterator_sparse_filter.cc -[ 56%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o +[ 58%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o -MF CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o.d -o CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_consolidate_dense.cc -[ 56%] Linking CXX executable tiledb_array_iterator_dense -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_iterator_dense.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_create_sparse.dir/link.d CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o -o tiledb_array_create_sparse ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +[ 58%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_vid_mapping.pb.cc +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_tiledb_utils.dir/link.d CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o -o test_tiledb_utils ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 56%] Built target tiledb_array_create_sparse +[ 58%] Built target test_tiledb_utils make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 57%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o -MF CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o.d -o CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_consolidate_sparse.cc -[ 57%] Linking CXX executable tiledb_array_iterator_sparse -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_iterator_sparse.dir/link.txt --verbose=1 -[ 57%] Linking CXX executable tiledb_array_parallel_consolidate_dense -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/link.txt --verbose=1 -[ 58%] Linking CXX executable tiledb_array_iterator_sparse_filter -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_iterator_sparse_filter.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_iterator_dense.dir/link.d CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o -o tiledb_array_iterator_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 58%] Built target tiledb_array_iterator_dense +[ 59%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o -MF CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o.d -o CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_consolidate_sparse.cc +[ 59%] Built target tiledb_array_iterator_dense make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 58%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o +[ 59%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o -MF CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_dense_1.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_iterator_sparse.dir/link.d CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o -o tiledb_array_iterator_sparse ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 58%] Linking CXX executable tiledb_array_parallel_consolidate_sparse -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/link.d CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o -o tiledb_array_parallel_consolidate_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 58%] Built target tiledb_array_iterator_sparse -[ 58%] Built target tiledb_array_parallel_consolidate_dense make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/depend -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/DependInfo.cmake "--color=" +[ 59%] Linking CXX executable tiledb_array_parallel_consolidate_dense +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 60%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o -MF CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_dense_2.cc +[ 60%] Linking CXX executable tiledb_array_parallel_consolidate_sparse +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/link.txt --verbose=1 +[ 60%] Linking CXX executable tiledb_array_parallel_read_dense_1 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_dense_1.dir/link.txt --verbose=1 +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_iterator_sparse_filter.dir/link.d CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o -o tiledb_array_iterator_sparse_filter ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 59%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o -[ 59%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o -MF CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_dense_2.cc +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 60%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o -MF CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_mpi_io_dense.cc -[ 59%] Built target tiledb_array_iterator_sparse_filter +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/link.d CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o -o tiledb_array_parallel_consolidate_sparse ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 60%] Built target tiledb_array_parallel_consolidate_sparse make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/DependInfo.cmake "--color=" +[ 60%] Linking CXX executable tiledb_array_parallel_read_dense_2 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_dense_2.dir/link.txt --verbose=1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 59%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o +[ 60%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_read_dense_1.dir/link.d CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o -o tiledb_array_parallel_read_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o -MF CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_sparse_1.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 59%] Built target GenomicsDB_library_object_files +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/link.d CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o -o tiledb_array_parallel_consolidate_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 60%] Built target tiledb_array_parallel_read_dense_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/DependInfo.cmake "--color=" -[ 59%] Linking CXX executable tiledb_array_parallel_read_dense_1 -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_dense_1.dir/link.txt --verbose=1 -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 60%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o -MF CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_sparse_2.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/link.d CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o -o tiledb_array_parallel_consolidate_sparse ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 61%] Linking CXX executable tiledb_array_parallel_read_mpi_io_dense -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/link.txt --verbose=1 -[ 61%] Built target tiledb_array_parallel_consolidate_sparse +[ 60%] Built target tiledb_array_parallel_consolidate_dense make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 61%] Linking CXX executable tiledb_array_parallel_read_dense_2 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_dense_2.dir/link.txt --verbose=1 -[ 61%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o +[ 60%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o -MF CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o.d -o CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_dense_1.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/link.d CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o -o tiledb_array_parallel_read_mpi_io_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 61%] Built target tiledb_array_parallel_read_mpi_io_dense +[ 61%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o -MF CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_sparse_2.cc +[ 62%] Linking CXX executable tiledb_array_parallel_read_mpi_io_dense +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/link.txt --verbose=1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 61%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o -MF CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o.d -o CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_dense_2.cc -[ 61%] Linking CXX executable tiledb_array_parallel_read_sparse_1 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_read_dense_1.dir/link.d CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o -o tiledb_array_parallel_read_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 61%] Built target tiledb_array_parallel_read_dense_1 -[ 61%] Linking CXX executable tiledb_array_parallel_read_sparse_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/depend -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/link.txt --verbose=1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 61%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 62%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o -MF CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_sparse_1.cc -[ 62%] Linking CXX executable tiledb_array_parallel_write_dense_1 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_write_dense_1.dir/link.txt --verbose=1 -[ 62%] Linking CXX executable tiledb_array_parallel_write_dense_2 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_write_dense_2.dir/link.txt --verbose=1 +[ 62%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_read_dense_2.dir/link.d CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o -o tiledb_array_parallel_read_dense_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o -MF CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o.d -o CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_dense_2.cc +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/link.d CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o -o tiledb_array_parallel_read_mpi_io_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 62%] Built target tiledb_array_parallel_read_dense_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/depend @@ -4642,38 +4672,39 @@ cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build +[ 62%] Linking CXX executable tiledb_array_parallel_read_sparse_1 +[ 62%] Built target tiledb_array_parallel_read_mpi_io_dense make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 62%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o -MF CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_sparse_2.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/link.d CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o -o tiledb_array_parallel_read_sparse_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 62%] Built target tiledb_array_parallel_read_sparse_1 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/link.txt --verbose=1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/DependInfo.cmake "--color=" +[ 62%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o -MF CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_sparse_2.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 63%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o -MF CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o.d -o CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_primitive.cc -[ 64%] Linking CXX executable tiledb_array_parallel_write_sparse_1 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/link.txt --verbose=1 -[ 65%] Linking CXX executable test_tiledb_utils -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_tiledb_utils.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/link.d CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o -o tiledb_array_parallel_read_sparse_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 65%] Built target tiledb_array_parallel_read_sparse_2 +[ 64%] Linking CXX executable tiledb_array_parallel_write_dense_1 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script 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/build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/DependInfo.cmake "--color=" +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/link.d CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o -o tiledb_array_parallel_read_sparse_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +[ 65%] Linking CXX executable tiledb_array_parallel_write_sparse_1 +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 65%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o -MF CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o.d -o CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_1.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_write_dense_1.dir/link.d CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o -o tiledb_array_parallel_write_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 65%] Built target tiledb_array_parallel_write_dense_1 +[ 65%] Built target tiledb_array_parallel_read_sparse_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/DependInfo.cmake "--color=" @@ -4682,167 +4713,159 @@ make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 65%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o -MF CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o.d -o CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_2.cc +[ 65%] Linking CXX executable tiledb_array_primitive +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_primitive.dir/link.txt --verbose=1 [ 65%] Linking CXX executable tiledb_array_parallel_write_sparse_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_write_dense_2.dir/link.d CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o -o tiledb_array_parallel_write_dense_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_write_dense_1.dir/link.d CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o -o tiledb_array_parallel_write_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 65%] Built target tiledb_array_parallel_write_dense_2 +[ 65%] Built target tiledb_array_parallel_write_dense_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 65%] Linking CXX executable tiledb_array_primitive -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_primitive.dir/link.txt --verbose=1 [ 66%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o -MF CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o.d -o CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_3.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/link.d CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o -o tiledb_array_parallel_write_sparse_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/link.d CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o -o tiledb_array_parallel_read_sparse_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 66%] Built target tiledb_array_parallel_write_sparse_1 +[ 66%] Built target tiledb_array_parallel_read_sparse_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/DependInfo.cmake "--color=" +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_write_dense_2.dir/link.d CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o -o tiledb_array_parallel_write_dense_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 66%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o -MF CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o.d -o CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_sorted.cc -[ 67%] Linking CXX executable tiledb_array_read_dense_1 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_dense_1.dir/link.txt --verbose=1 -[ 67%] Linking CXX executable tiledb_array_read_dense_2 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_dense_2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_tiledb_utils.dir/link.d CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o -o test_tiledb_utils ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 67%] Built target test_tiledb_utils +[ 66%] Built target tiledb_array_parallel_write_dense_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/DependInfo.cmake "--color=" -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/link.d CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o -o tiledb_array_parallel_write_sparse_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +[ 66%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o -MF CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o.d -o CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_sorted.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 66%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o -MF CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_1.cc +[ 66%] Linking CXX executable tiledb_array_read_dense_2 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_dense_2.dir/link.txt --verbose=1 +[ 67%] Linking CXX executable tiledb_array_read_dense_1 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_dense_1.dir/link.txt --verbose=1 [ 67%] Linking CXX executable tiledb_array_read_dense_3 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_dense_3.dir/link.txt --verbose=1 -[ 67%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o -[ 67%] Built target tiledb_array_parallel_write_sparse_2 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/link.d CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o -o tiledb_array_parallel_write_sparse_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 67%] Built target tiledb_array_parallel_write_sparse_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/depend -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o -MF CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_1.cc make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 67%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o -MF CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_2.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_primitive.dir/link.d CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o -o tiledb_array_primitive ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 67%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o -MF CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_2.cc +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/link.d CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o -o tiledb_array_parallel_write_sparse_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx [ 67%] Built target tiledb_array_primitive +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 68%] Linking CXX executable tiledb_array_read_dense_sorted cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_dense_sorted.dir/link.txt --verbose=1 -[ 68%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o -MF CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_filter_1.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_dense_1.dir/link.d CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o -o tiledb_array_read_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +[ 68%] Built target tiledb_array_parallel_write_sparse_2 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 68%] Built target tiledb_array_read_dense_1 +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/DependInfo.cmake "--color=" +[ 68%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o -MF CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_filter_1.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 69%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o -MF CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_filter_2.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_dense_2.dir/link.d CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o -o tiledb_array_read_dense_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 69%] Built target tiledb_array_read_dense_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build -[ 70%] Linking CXX executable tiledb_array_read_sparse_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_2.dir/link.txt --verbose=1 -[ 70%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o +[ 69%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o -MF CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_sorted.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_dense_3.dir/link.d CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o -o tiledb_array_read_dense_3 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +[ 69%] Linking CXX executable tiledb_array_read_sparse_1 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_dense_2.dir/link.d CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o -o tiledb_array_read_dense_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 70%] Built target tiledb_array_read_dense_3 +[ 69%] Built target tiledb_array_read_dense_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 70%] Linking CXX executable tiledb_array_read_sparse_1 -[ 70%] Linking CXX executable tiledb_array_read_sparse_filter_1 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_1.dir/link.txt --verbose=1 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_filter_1.dir/link.txt --verbose=1 +[ 70%] Linking CXX executable tiledb_array_read_sparse_2 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_2.dir/link.txt --verbose=1 [ 70%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o -MF CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o.d -o CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_update_dense_1.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_dense_sorted.dir/link.d CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o -o tiledb_array_read_dense_sorted ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_dense_1.dir/link.d CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o -o tiledb_array_read_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 70%] Built target tiledb_array_read_dense_sorted +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o -MF CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o.d -o CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_update_dense_1.cc +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_dense_3.dir/link.d CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o -o tiledb_array_read_dense_3 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 71%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o -MF CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o.d -o CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_update_dense_2.cc -[ 71%] Linking CXX executable tiledb_array_read_sparse_filter_2 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_filter_2.dir/link.txt --verbose=1 -[ 72%] Linking CXX executable tiledb_array_read_sparse_sorted -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_sorted.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_2.dir/link.d CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o -o tiledb_array_read_sparse_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 72%] Built target tiledb_array_read_sparse_2 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/DependInfo.cmake "--color=" +[ 70%] Built target tiledb_array_read_dense_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/DependInfo.cmake "--color=" -[ 72%] Linking CXX executable tiledb_array_update_dense_1 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_dense_1.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build +[ 70%] Built target tiledb_array_read_dense_3 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 72%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o -MF CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_update_sparse_1.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_1.dir/link.d CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o -o tiledb_array_read_sparse_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 72%] Linking CXX executable tiledb_array_update_dense_2 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_filter_1.dir/link.d CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o -o tiledb_array_read_sparse_filter_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 72%] Built target tiledb_array_read_sparse_1 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_dense_2.dir/link.txt --verbose=1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/DependInfo.cmake "--color=" -[ 72%] Built target tiledb_array_read_sparse_filter_1 +[ 70%] Linking CXX executable tiledb_array_read_sparse_filter_2 +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_filter_2.dir/link.txt --verbose=1 +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/build -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 71%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o -MF CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o.d -o CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_update_dense_2.cc +[ 71%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o -MF CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_update_sparse_1.cc +[ 71%] Linking CXX executable tiledb_array_read_sparse_filter_1 +[ 72%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_filter_1.dir/link.txt --verbose=1 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o -MF CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_update_sparse_2.cc +[ 72%] Linking CXX executable test_utils +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_utils.dir/link.txt --verbose=1 +[ 73%] Linking CXX executable tiledb_array_read_sparse_sorted +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_sorted.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_dense_sorted.dir/link.d CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o -o tiledb_array_read_dense_sorted ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 73%] Built target tiledb_array_read_dense_sorted +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/DependInfo.cmake "--color=" -[ 73%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o -MF CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_update_sparse_2.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 73%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o -MF CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o.d -o CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_dense_1.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_filter_2.dir/link.d CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o -o tiledb_array_read_sparse_filter_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_1.dir/link.d CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o -o tiledb_array_read_sparse_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 73%] Built target tiledb_array_read_sparse_filter_2 +[ 73%] Built target tiledb_array_read_sparse_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/DependInfo.cmake "--color=" @@ -4851,316 +4874,325 @@ make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 73%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o -MF CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o.d -o CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_dense_2.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_sorted.dir/link.d CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o -o tiledb_array_read_sparse_sorted ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_2.dir/link.d CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o -o tiledb_array_read_sparse_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 73%] Built target tiledb_array_read_sparse_sorted +[ 73%] Linking CXX executable tiledb_array_update_dense_1 +[ 73%] Built target tiledb_array_read_sparse_2 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_dense_1.dir/link.txt --verbose=1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/DependInfo.cmake "--color=" +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_filter_2.dir/link.d CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o -o tiledb_array_read_sparse_filter_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 73%] Built target tiledb_array_read_sparse_filter_2 +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/depend [ 74%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o -MF CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o.d -o CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_dense_sorted.cc -[ 74%] Linking CXX executable tiledb_array_update_sparse_1 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_sparse_1.dir/link.txt --verbose=1 [ 74%] Linking CXX executable tiledb_array_update_sparse_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_sparse_2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_update_dense_1.dir/link.d CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o -o tiledb_array_update_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 74%] Built target tiledb_array_update_dense_1 -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/DependInfo.cmake "--color=" -[ 75%] Linking CXX executable tiledb_array_write_dense_1 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_dense_1.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 74%] Linking CXX executable tiledb_array_update_dense_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_dense_2.dir/link.txt --verbose=1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 75%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o +[ 74%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o -MF CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_1.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_update_dense_2.dir/link.d CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o -o tiledb_array_update_dense_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +[ 74%] Linking CXX executable tiledb_array_update_sparse_1 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_sparse_1.dir/link.txt --verbose=1 +[ 75%] Linking CXX executable tiledb_array_write_dense_1 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_dense_1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_filter_1.dir/link.d CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o -o tiledb_array_read_sparse_filter_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 75%] Built target tiledb_array_update_dense_2 +[ 75%] Built target tiledb_array_read_sparse_filter_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/DependInfo.cmake "--color=" +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_utils.dir/link.d CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o -o test_utils ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 75%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o -MF CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_2.cc [ 75%] Linking CXX executable tiledb_array_write_dense_2 +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_dense_2.dir/link.txt --verbose=1 -[ 75%] Linking CXX executable tiledb_array_write_dense_sorted -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_dense_sorted.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_update_sparse_1.dir/link.d CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o -o tiledb_array_update_sparse_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 75%] Built target tiledb_array_update_sparse_1 +[ 75%] Built target test_utils make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 75%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o -MF CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_2.cc +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_sorted.dir/link.d CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o -o tiledb_array_read_sparse_sorted ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 76%] Linking CXX executable tiledb_array_write_sparse_1 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_1.dir/link.txt --verbose=1 -[ 76%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o -MF CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o.d -o CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_3.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_dense_1.dir/link.d CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o -o tiledb_array_write_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_update_sparse_2.dir/link.d CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o -o tiledb_array_update_sparse_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 76%] Built target tiledb_array_write_dense_1 +[ 75%] Built target tiledb_array_read_sparse_sorted make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/DependInfo.cmake "--color=" -[ 76%] Built target tiledb_array_update_sparse_2 -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/depend make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build +[ 75%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o -MF CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o.d -o CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_3.cc +[ 75%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o -MF CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o.d -o CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_4.cc +[ 75%] Linking CXX executable tiledb_array_write_dense_sorted +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_dense_sorted.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_update_dense_1.dir/link.d CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o -o tiledb_array_update_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 75%] Built target tiledb_array_update_dense_1 +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 76%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/DependInfo.cmake "--color=" +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_update_sparse_2.dir/link.d CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o -o tiledb_array_update_sparse_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o -MF CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o.d -o CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_4.cc make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 76%] Linking CXX executable tiledb_array_write_sparse_2 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_2.dir/link.txt --verbose=1 -[ 77%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o +[ 76%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o -MF CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o.d -o CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_catching_errors.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_dense_2.dir/link.d CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o -o tiledb_array_write_dense_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_update_dense_2.dir/link.d CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o -o tiledb_array_update_dense_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +[ 77%] Linking CXX executable tiledb_array_write_sparse_1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 77%] Built target tiledb_array_write_dense_2 +[ 77%] Built target tiledb_array_update_sparse_2 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_1.dir/link.txt --verbose=1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 77%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o -MF CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o.d -o CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_clear_delete_move.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_dense_sorted.dir/link.d CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o -o tiledb_array_write_dense_sorted ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -[ 78%] Linking CXX executable tiledb_array_write_sparse_3 -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_3.dir/link.txt --verbose=1 -[ 78%] Built target tiledb_array_write_dense_sorted +[ 77%] Built target tiledb_array_update_dense_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 78%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 77%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o -MF CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o.d -o CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_clear_delete_move.cc +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_update_sparse_1.dir/link.d CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o -o tiledb_array_update_sparse_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +[ 77%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o -MF CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o.d -o CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_config.cc -[ 78%] Linking CXX executable tiledb_array_write_sparse_4 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_4.dir/link.txt --verbose=1 -[ 78%] Linking CXX executable tiledb_catching_errors -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_catching_errors.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_sparse_1.dir/link.d CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o -o tiledb_array_write_sparse_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_dense_2.dir/link.d CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o -o tiledb_array_write_dense_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +[ 77%] Built target tiledb_array_update_sparse_1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 78%] Built target tiledb_array_write_sparse_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 79%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o -MF CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o.d -o CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_delete.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_sparse_2.dir/link.d CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o -o tiledb_array_write_sparse_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 79%] Built target tiledb_array_write_sparse_2 +[ 77%] Built target tiledb_array_write_dense_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/DependInfo.cmake "--color=" +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_dense_1.dir/link.d CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o -o tiledb_array_write_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 80%] Linking CXX executable tiledb_clear_delete_move -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_clear_delete_move.dir/link.txt --verbose=1 -[ 80%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o -MF CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o.d -o CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_ls.cc -[ 80%] Linking CXX executable tiledb_config -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_config.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_sparse_3.dir/link.d CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o -o tiledb_array_write_sparse_3 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +[ 77%] Linking CXX executable tiledb_array_write_sparse_2 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_2.dir/link.txt --verbose=1 +[ 78%] Linking CXX executable tiledb_array_write_sparse_3 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_3.dir/link.txt --verbose=1 +[ 78%] Built target tiledb_array_write_dense_1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 80%] Built target tiledb_array_write_sparse_3 +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 78%] Linking CXX executable tiledb_array_write_sparse_4 +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_4.dir/link.txt --verbose=1 +[ 79%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o -MF CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o.d -o CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_delete.cc +[ 79%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o -MF CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o.d -o CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_ls.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 80%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o +[ 79%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o -MF CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o.d -o CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_ls_workspaces.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_sparse_4.dir/link.d CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o -o tiledb_array_write_sparse_4 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_catching_errors.dir/link.d CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o -o tiledb_catching_errors ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security 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Built target tiledb_array_write_dense_sorted make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/DependInfo.cmake "--color=" -[ 80%] Built target tiledb_catching_errors -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build.make 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'/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 80%] Linking CXX executable tiledb_clear_delete_move +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_clear_delete_move.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 80%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o -MF CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o.d -o CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_consolidate.cc -[ 80%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o -MF CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o.d -o CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_create.cc -[ 81%] Linking CXX executable tiledb_ls -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_ls.dir/link.txt --verbose=1 -[ 81%] Linking CXX executable test_utils -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_utils.dir/link.txt --verbose=1 -[ 81%] Linking CXX executable tiledb_delete -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_delete.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_clear_delete_move.dir/link.d CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o -o tiledb_clear_delete_move ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +[ 80%] Built target GenomicsDB_library_object_files +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/DependInfo.cmake "--color=" +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_sparse_1.dir/link.d CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o -o tiledb_array_write_sparse_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 81%] Built target tiledb_clear_delete_move +[ 80%] Built target tiledb_array_write_sparse_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 80%] Linking CXX executable tiledb_config +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_config.dir/link.txt --verbose=1 +[ 80%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o -MF CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o.d -o CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_create.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 82%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o +[ 81%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o -MF CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o.d -o CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_iterator.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_config.dir/link.d CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o -o tiledb_config ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_sparse_2.dir/link.d CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o -o tiledb_array_write_sparse_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 82%] Linking CXX executable tiledb_ls_workspaces -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_ls_workspaces.dir/link.txt --verbose=1 -[ 82%] Built target tiledb_config +[ 81%] Built target tiledb_array_write_sparse_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/DependInfo.cmake "--color=" +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_sparse_3.dir/link.d CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o -o tiledb_array_write_sparse_3 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 82%] Linking CXX executable tiledb_ls +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_ls.dir/link.txt --verbose=1 [ 82%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o -MF CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o.d -o CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_primitive.cc -[ 83%] Linking CXX executable tiledb_metadata_consolidate -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_consolidate.dir/link.txt --verbose=1 -[ 83%] Linking CXX executable tiledb_metadata_create -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_create.dir/link.txt --verbose=1 -[ 83%] Linking CXX executable tiledb_metadata_iterator -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_iterator.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_ls.dir/link.d CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o -o tiledb_ls ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_delete.dir/link.d CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o -o tiledb_delete ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 83%] Built target tiledb_ls +[ 82%] Built target tiledb_array_write_sparse_3 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/DependInfo.cmake "--color=" -[ 83%] Built target tiledb_delete -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 83%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o +[ 82%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o -MF CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o.d -o CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_read.cc -[ 84%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o -MF CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o.d -o CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_update.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_utils.dir/link.d CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o -o test_utils ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx -[ 85%] Linking CXX executable tiledb_metadata_primitive +[ 82%] Linking CXX executable tiledb_ls_workspaces +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_ls_workspaces.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_sparse_4.dir/link.d CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o -o tiledb_array_write_sparse_4 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_primitive.dir/link.txt --verbose=1 -[ 85%] Built target test_utils +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_catching_errors.dir/link.d CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o -o tiledb_catching_errors ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 82%] Linking CXX executable tiledb_delete +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_delete.dir/link.txt --verbose=1 +[ 82%] Built target tiledb_array_write_sparse_4 +[ 82%] Built target tiledb_catching_errors +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 85%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_ls_workspaces.dir/link.d CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o -o tiledb_ls_workspaces ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o -MF CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o.d -o CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_write.cc +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_clear_delete_move.dir/link.d CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o -o tiledb_clear_delete_move ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 85%] Built target tiledb_ls_workspaces +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 84%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o +[ 84%] Linking CXX executable tiledb_metadata_consolidate +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o -MF CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o.d -o CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_update.cc +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_consolidate.dir/link.txt --verbose=1 +[ 84%] Built target tiledb_clear_delete_move make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 84%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o -MF CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o.d -o CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_write.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 85%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o +[ 84%] Linking CXX executable tiledb_metadata_create +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_create.dir/link.txt --verbose=1 +[ 84%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o -MF CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o.d -o CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_workspace_group_create.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_create.dir/link.d CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o -o tiledb_metadata_create ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_config.dir/link.d CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o -o tiledb_config ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 85%] Built target tiledb_metadata_create +[ 84%] Linking CXX executable test_storage_buffer +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_storage_buffer.dir/link.txt --verbose=1 +[ 85%] Linking CXX executable tiledb_metadata_primitive +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_primitive.dir/link.txt --verbose=1 +[ 85%] Built target tiledb_config make -f src/main/CMakeFiles/tiledbgenomicsdb.dir/build.make src/main/CMakeFiles/tiledbgenomicsdb.dir/depend +[ 85%] Linking CXX executable tiledb_metadata_iterator make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/tiledbgenomicsdb.dir/DependInfo.cmake "--color=" -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_consolidate.dir/link.d CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o -o tiledb_metadata_consolidate ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_iterator.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/main/CMakeFiles/tiledbgenomicsdb.dir/build.make src/main/CMakeFiles/tiledbgenomicsdb.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_iterator.dir/link.d CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o -o tiledb_metadata_iterator ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 85%] Linking CXX executable tiledb_metadata_read +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_read.dir/link.txt --verbose=1 [ 85%] Linking CXX shared library libgenomicsdb.so cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledbgenomicsdb.dir/link.txt --verbose=1 -[ 85%] Built target tiledb_metadata_consolidate -[ 85%] Built target tiledb_metadata_iterator +/usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable 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CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/annotation_service.cc.o CMakeFiles/GenomicsDB_library_objemake[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdb.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/main/CMakeFiles/genomicsdb.dir/build.make src/main/CMakeFiles/genomicsdb.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_delete.dir/link.d CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o -o tiledb_delete ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +[ 85%] Linking CXX executable 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CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/annotation_service.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets[ 85%] Linking CXX executable tiledb_metadata_update -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_update.dir/link.txt --verbose=1 -[ 85%] Linking CXX executable tiledb_metadata_read -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_read.dir/link.txt --verbose=1 -[ 85%] Linking CXX executable tiledb_metadata_write -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_write.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_primitive.dir/link.d CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o -o tiledb_metadata_primitive ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_create.dir/link.d CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o -o tiledb_metadata_create ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +[ 85%] Built target tiledb_delete make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 85%] Built target tiledb_metadata_primitive [ 86%] Linking CXX executable tiledb_workspace_group_create cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_workspace_group_create.dir/link.txt --verbose=1 +/usr/bin/ar qc libgenomicsdb.a CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/annotation_service.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets[ 86%] Built target tiledb_metadata_create +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_consolidate.dir/link.d CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o -o tiledb_metadata_consolidate ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 86%] Built target tiledb_metadata_consolidate +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_ls_workspaces.dir/link.d CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o -o tiledb_ls_workspaces ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 86%] Built target tiledb_ls_workspaces +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_primitive.dir/link.d CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o -o tiledb_metadata_primitive ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_storage_buffer.dir/link.d CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o -o test_storage_buffer ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 86%] Built target tiledb_metadata_primitive +[ 86%] Built target test_storage_buffer +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_iterator.dir/link.d CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o -o tiledb_metadata_iterator ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 86%] Built target tiledb_metadata_iterator /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_read.dir/link.d CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o -o tiledb_metadata_read ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_write.dir/link.d CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o -o tiledb_metadata_write ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx [ 86%] Built target tiledb_metadata_read -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_update.dir/link.d CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o -o tiledb_metadata_update ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 86%] Built target tiledb_metadata_write -[ 86%] Built target tiledb_metadata_update -[ 86%] Linking CXX executable test_storage_buffer -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_storage_buffer.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_workspace_group_create.dir/link.d CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o -o tiledb_workspace_group_create ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 86%] Linking CXX executable test_posixfs -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_posixfs.dir/link.txt --verbose=1 +[ 86%] Built target tiledb_metadata_update [ 86%] Built target tiledb_workspace_group_create -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_storage_buffer.dir/link.d CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o -o test_storage_buffer ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_write.dir/link.d CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o -o tiledb_metadata_write ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 86%] Built target test_storage_buffer +[ 86%] Built target tiledb_metadata_write ct_files.dir/cpp/src/api/genomicsdb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o -Wl,-rpath,/usr/lib/x86_64-linux-gnu/openmpi/lib:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core: /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl ../../genomicsdb-htslib/libgenomicsdb-hts.so ../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/liblzma.so cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/cmake -E cmake_symlink_library libgenomicsdb.so.1.5.4 libgenomicsdb.so.1 libgenomicsdb.so make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_posixfs.dir/link.d CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o -o test_posixfs ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 86%] Built target tiledbgenomicsdb make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' @@ -5168,17 +5200,20 @@ make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 86%] Building CXX object src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o +[ 86%] Building CXX object 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-I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat 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-D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o -MF CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o.d -o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_jni_init.cc -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o -MF CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o.d -o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBQuery.cc -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o -MF CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o.d -o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc +[ 87%] Building CXX object src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o -MF CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o.d -o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBUtils.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o -MF CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o.d -o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBQueryStream.cc -[ 87%] Built target test_posixfs +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o -MF CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o.d -o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBQuery.cc +[ 87%] Linking CXX executable test_posixfs +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_posixfs.dir/link.txt --verbose=1 +[ 87%] Linking CXX executable test_sparse_array_api +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_sparse_array_api.dir/link.txt --verbose=1 In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, @@ -5202,6 +5237,12 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_posixfs.dir/link.d CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o -o test_posixfs ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 87%] Built target test_posixfs +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_sparse_array_api.dir/link.d CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o -o test_sparse_array_api ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 87%] Built target test_sparse_array_api In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, @@ -5217,8 +5258,6 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 87%] Linking CXX executable test_sparse_array_api -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_sparse_array_api.dir/link.txt --verbose=1 In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, @@ -5242,26 +5281,6 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_sparse_array_api.dir/link.d CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o -o test_sparse_array_api ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 87%] Built target test_sparse_array_api -[ 87%] Linking CXX executable test_expressions -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_expressions.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_expressions.dir/link.d CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o -o test_expressions ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 87%] Built target test_expressions -/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc: In function 'jlong Java_org_genomicsdb_importer_GenomicsDBImporterJni_jniInitializeGenomicsDBImporterObject(JNIEnv*, jobject, jstring, jint)': -/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:102:3: warning: control reaches end of non-void function [-Wreturn-type] - 102 | } - | ^ -/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc: In function 'jlong Java_org_genomicsdb_importer_GenomicsDBImporterJni_jniSetupGenomicsDBLoader(JNIEnv*, jobject, jlong, jstring)': -/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:159:3: warning: control reaches end of non-void function [-Wreturn-type] - 159 | } - | ^ -/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc: In function 'jboolean Java_org_genomicsdb_importer_GenomicsDBImporterJni_jniImportBatch(JNIEnv*, jobject, jlong, jlongArray)': -/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:231:3: warning: control reaches end of non-void function [-Wreturn-type] - 231 | } - | ^ _mapping.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o /usr/bin/ranlib libgenomicsdb.a make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' @@ -5270,90 +5289,104 @@ make -f src/test/cpp/CMakeFiles/api_tests.dir/build.make src/test/cpp/CMakeFiles/api_tests.dir/depend make -f src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build.make src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/depend make -f tools/CMakeFiles/create_genomicsdb_workspace.dir/build.make tools/CMakeFiles/create_genomicsdb_workspace.dir/depend -make -f tools/CMakeFiles/vcf2genomicsdb_init.dir/build.make tools/CMakeFiles/vcf2genomicsdb_init.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/DependInfo.cmake "--color=" -make -f tools/CMakeFiles/vcf2genomicsdb.dir/build.make tools/CMakeFiles/vcf2genomicsdb.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/DependInfo.cmake "--color=" +make -f tools/CMakeFiles/vcf2genomicsdb_init.dir/build.make tools/CMakeFiles/vcf2genomicsdb_init.dir/depend +make -f tools/CMakeFiles/vcf2genomicsdb.dir/build.make tools/CMakeFiles/vcf2genomicsdb.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/DependInfo.cmake "--color=" make -f tools/CMakeFiles/consolidate_genomicsdb_array.dir/build.make tools/CMakeFiles/consolidate_genomicsdb_array.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.dir/DependInfo.cmake "--color=" make -f tools/CMakeFiles/gt_mpi_gather.dir/build.make tools/CMakeFiles/gt_mpi_gather.dir/depend -make -f tools/CMakeFiles/vcfdiff.dir/build.make tools/CMakeFiles/vcfdiff.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f tools/CMakeFiles/vcfdiff.dir/build.make tools/CMakeFiles/vcfdiff.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb_init.dir/DependInfo.cmake "--color=" make -f tools/CMakeFiles/vcf_histogram.dir/build.make tools/CMakeFiles/vcf_histogram.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb.dir/DependInfo.cmake "--color=" +make -f example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build.make example/CMakeFiles/test_genomicsdb_bcf_generator.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/gt_mpi_gather.dir/DependInfo.cmake "--color=" +make -f example/CMakeFiles/test_genomicsdb_importer.dir/build.make example/CMakeFiles/test_genomicsdb_importer.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcfdiff.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf_histogram.dir/DependInfo.cmake "--color=" -make -f example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build.make example/CMakeFiles/test_genomicsdb_bcf_generator.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_importer.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_bcf_generator.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f tools/CMakeFiles/create_genomicsdb_workspace.dir/build.make 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-I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/tools/include -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT tools/CMakeFiles/consolidate_genomicsdb_array.dir/src/consolidate_genomicsdb_array.cc.o -MF CMakeFiles/consolidate_genomicsdb_array.dir/src/consolidate_genomicsdb_array.cc.o.d -o CMakeFiles/consolidate_genomicsdb_array.dir/src/consolidate_genomicsdb_array.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/tools/src/consolidate_genomicsdb_array.cc +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader 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-I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT example/CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o -MF CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o.d -o CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_bcf_generator.cc -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/ctest_main.cc.o -MF CMakeFiles/ctests.dir/src/ctest_main.cc.o.d -o CMakeFiles/ctests.dir/src/ctest_main.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/ctest_main.cc +[ 92%] Linking CXX executable test_expressions +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_expressions.dir/link.txt --verbose=1 In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, @@ -5376,14 +5409,16 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_expressions.dir/link.d CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o -o test_expressions ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 92%] Built target test_expressions +[ 92%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o -MF CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o.d -o CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_non_diploid_mapper.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:27, - from /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_bcf_generator.cc:25: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/tools/src/gt_mpi_gather.cc:30: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -5394,8 +5429,7 @@ from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_bcf_generator.cc:24: + from /build/reproducible-path/genomicsdb-1.5.5/tools/src/gt_mpi_gather.cc:24: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ @@ -5403,7 +5437,9 @@ from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/tools/src/gt_mpi_gather.cc:30: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, + from /build/reproducible-path/genomicsdb-1.5.5/tools/src/consolidate_genomicsdb_array.cc:29: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -5414,31 +5450,30 @@ from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/genomicsdb-1.5.5/tools/src/gt_mpi_gather.cc:24: + from /build/reproducible-path/genomicsdb-1.5.5/tools/src/consolidate_genomicsdb_array.cc:26: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, - from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc:26: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:27, + from /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_bcf_generator.cc:25: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_algobase.h:65, - from /usr/include/c++/14/bits/hashtable_policy.h:36, - from /usr/include/c++/14/bits/hashtable.h:35, - from /usr/include/c++/14/bits/unordered_map.h:33, - from /usr/include/c++/14/unordered_map:41, - from /usr/include/c++/14/functional:63, - from /usr/include/spdlog/common.h:13, - from /usr/include/spdlog/spdlog.h:12, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/genomicsdb_logger.h:41, - from /build/reproducible-path/genomicsdb-1.5.5/tools/include/common.h:27, - from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc:25: +In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, + from /usr/include/c++/14/string:47, + from /usr/include/c++/14/bits/locale_classes.h:40, + from /usr/include/c++/14/bits/ios_base.h:41, + from /usr/include/c++/14/ios:44, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, + from /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_bcf_generator.cc:24: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ @@ -5448,7 +5483,8 @@ from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, - from /build/reproducible-path/genomicsdb-1.5.5/tools/src/consolidate_genomicsdb_array.cc:29: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/genomicsdb_importer.h:25, + from /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_importer.cc:26: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -5459,10 +5495,25 @@ from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/genomicsdb-1.5.5/tools/src/consolidate_genomicsdb_array.cc:26: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, + from /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_importer.cc:25: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ +/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc: In function 'jlong Java_org_genomicsdb_importer_GenomicsDBImporterJni_jniInitializeGenomicsDBImporterObject(JNIEnv*, jobject, jstring, jint)': +/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:102:3: warning: control reaches end of non-void function [-Wreturn-type] + 102 | } + | ^ +/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc: In function 'jlong Java_org_genomicsdb_importer_GenomicsDBImporterJni_jniSetupGenomicsDBLoader(JNIEnv*, jobject, jlong, jstring)': +/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:159:3: warning: control reaches end of non-void function [-Wreturn-type] + 159 | } + | ^ +/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc: In function 'jboolean Java_org_genomicsdb_importer_GenomicsDBImporterJni_jniImportBatch(JNIEnv*, jobject, jlong, jlongArray)': +/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:231:3: warning: control reaches end of non-void function [-Wreturn-type] + 231 | } + | ^ +[ 92%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_multid_vector.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_multid_vector.cc.o -MF CMakeFiles/ctests.dir/src/test_multid_vector.cc.o.d -o CMakeFiles/ctests.dir/src/test_multid_vector.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_multid_vector.cc /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc: In constructor 'VCFDiffFile::VCFDiffFile(const std::string&, const std::string&)': /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:83:41: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 83 | std::string field_name = std::move(std::string(bcf_hdr_int2id(m_hdr, BCF_DT_ID, i))); @@ -5474,6 +5525,41 @@ from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, + from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc:26: +/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 290 | : std::iterator + | ^~~~~~~~ +In file included from /usr/include/c++/14/bits/stl_algobase.h:65, + from /usr/include/c++/14/bits/hashtable_policy.h:36, + from /usr/include/c++/14/bits/hashtable.h:35, + from /usr/include/c++/14/bits/unordered_map.h:33, + from /usr/include/c++/14/unordered_map:41, + from /usr/include/c++/14/functional:63, + from /usr/include/spdlog/common.h:13, + from /usr/include/spdlog/spdlog.h:12, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/genomicsdb_logger.h:41, + from /build/reproducible-path/genomicsdb-1.5.5/tools/include/common.h:27, + from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc:25: +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc: In member function 'void VCFDiffFile::compare_line(const bcf_hdr_t*, bcf1_t*)': +/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:591:33: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] + 591 | auto gold_ID_set = std::move(get_ID_set(gold_line)); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:591:33: note: remove 'std::move' call +/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:592:33: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] + 592 | auto test_ID_set = std::move(get_ID_set(m_line)); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:592:33: note: remove 'std::move' call +[ 93%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_pb.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_pb.cc.o -MF CMakeFiles/ctests.dir/src/test_pb.cc.o.d -o CMakeFiles/ctests.dir/src/test_pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_pb.cc +In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf_histogram.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator @@ -5491,31 +5577,6 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc: In member function 'void VCFDiffFile::compare_line(const bcf_hdr_t*, bcf1_t*)': -/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:591:33: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] - 591 | auto gold_ID_set = std::move(get_ID_set(gold_line)); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:591:33: note: remove 'std::move' call -/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:592:33: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] - 592 | auto test_ID_set = std::move(get_ID_set(m_line)); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:592:33: note: remove 'std::move' call -[ 90%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_config.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_config.cc.o -MF CMakeFiles/ctests.dir/src/test_config.cc.o.d -o CMakeFiles/ctests.dir/src/test_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_config.cc -[ 91%] Building CXX object src/test/cpp/CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o -MF CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o.d -o CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_genomicsdb_api.cc -[ 91%] Linking CXX shared library libgenomicsdbjni.so -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/cmake -E cmake_link_script CMakeFiles/genomicsdbjni.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,--dependency-file=CMakeFiles/genomicsdbjni.dir/link.d -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -shared -Wl,-soname,libgenomicsdbjni.so -o libgenomicsdbjni.so CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/usr/lib/x86_64-linux-gnu/openmpi/lib:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib libgenomicsdb.so.1.5.4 ../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl ../../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 91%] Built target genomicsdbjni -/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc: In function 'int main(int, char**)': -/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc:165:45: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] - 165 | auto loader_json_config_file = std::move(std::string(argv[optind])); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc:165:45: note: remove 'std::move' call -[ 91%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o -MF CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o.d -o CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_non_diploid_mapper.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, @@ -5535,15 +5596,11 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 92%] Linking CXX executable test_genomicsdb_bcf_generator -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_genomicsdb_bcf_generator.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/test_genomicsdb_bcf_generator.dir/link.d CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o -o test_genomicsdb_bcf_generator -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 92%] Built target test_genomicsdb_bcf_generator -[ 92%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_multid_vector.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_multid_vector.cc.o -MF CMakeFiles/ctests.dir/src/test_multid_vector.cc.o.d -o CMakeFiles/ctests.dir/src/test_multid_vector.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_multid_vector.cc -[ 92%] Linking CXX executable gt_mpi_gather -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/gt_mpi_gather.dir/link.txt --verbose=1 +/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc: In function 'int main(int, char**)': +/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc:165:45: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] + 165 | auto loader_json_config_file = std::move(std::string(argv[optind])); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc:165:45: note: remove 'std::move' call In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, @@ -5562,53 +5619,19 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -make -f example/CMakeFiles/test_genomicsdb_importer.dir/build.make example/CMakeFiles/test_genomicsdb_importer.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_importer.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f example/CMakeFiles/test_genomicsdb_importer.dir/build.make example/CMakeFiles/test_genomicsdb_importer.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 93%] Building CXX object example/CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT example/CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o -MF CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o.d -o CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_importer.cc -[ 94%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_pb.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_pb.cc.o -MF CMakeFiles/ctests.dir/src/test_pb.cc.o.d -o CMakeFiles/ctests.dir/src/test_pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_pb.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/gt_mpi_gather.dir/link.d CMakeFiles/gt_mpi_gather.dir/src/gt_mpi_gather.cc.o -o gt_mpi_gather -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 94%] Built target gt_mpi_gather +[ 94%] Linking CXX executable test_genomicsdb_bcf_generator +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_genomicsdb_bcf_generator.dir/link.txt --verbose=1 [ 94%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_logger.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_logger.cc.o -MF CMakeFiles/ctests.dir/src/test_logger.cc.o.d -o CMakeFiles/ctests.dir/src/test_logger.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_logger.cc -[ 94%] Linking CXX executable create_genomicsdb_workspace -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/create_genomicsdb_workspace.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/create_genomicsdb_workspace.dir/link.d CMakeFiles/create_genomicsdb_workspace.dir/src/create_genomicsdb_workspace.cc.o -o create_genomicsdb_workspace -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/test_genomicsdb_bcf_generator.dir/link.d CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o -o test_genomicsdb_bcf_generator -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 94%] Built target create_genomicsdb_workspace +[ 94%] Built target test_genomicsdb_bcf_generator [ 94%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_columnar_gvcf_iterator.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_columnar_gvcf_iterator.cc.o -MF CMakeFiles/ctests.dir/src/test_columnar_gvcf_iterator.cc.o.d -o CMakeFiles/ctests.dir/src/test_columnar_gvcf_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_columnar_gvcf_iterator.cc -In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/genomicsdb_importer.h:25, - from /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_importer.cc:26: -/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 290 | : std::iterator - | ^~~~~~~~ -In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, - from /usr/include/c++/14/string:47, - from /usr/include/c++/14/bits/locale_classes.h:40, - from /usr/include/c++/14/bits/ios_base.h:41, - from /usr/include/c++/14/ios:44, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_importer.cc:25: -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -[ 95%] Linking CXX executable vcfdiff -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfdiff.dir/link.txt --verbose=1 +[ 95%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o -MF CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o.d -o CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_htslib_plugin.cc +[ 95%] Linking CXX executable gt_mpi_gather +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/gt_mpi_gather.dir/link.txt --verbose=1 In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, @@ -5627,43 +5650,31 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 95%] Linking CXX executable test_genomicsdb_demo -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_genomicsdb_demo.dir/link.txt --verbose=1 -[ 95%] Linking CXX executable vcf_histogram -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf_histogram.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/vcfdiff.dir/link.d CMakeFiles/vcfdiff.dir/src/vcfdiff.cc.o -o vcfdiff -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 95%] Built target vcfdiff -[ 96%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o -MF CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o.d -o CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_htslib_plugin.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/test_genomicsdb_demo.dir/link.d CMakeFiles/test_genomicsdb_demo.dir/src/test_genomicsdb_demo.cc.o -o test_genomicsdb_demo -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../../main/libgenomicsdb.a ../../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../../../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/gt_mpi_gather.dir/link.d CMakeFiles/gt_mpi_gather.dir/src/gt_mpi_gather.cc.o -o gt_mpi_gather -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 96%] Built target test_genomicsdb_demo -[ 96%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_alleles_combiner.cc.o +[ 95%] Built target gt_mpi_gather +[ 95%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_alleles_combiner.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT 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'/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 97%] Linking CXX executable consolidate_genomicsdb_array -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/consolidate_genomicsdb_array.dir/link.txt --verbose=1 -[ 97%] Built target vcf_histogram -[ 97%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o +[ 95%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o -MF CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o.d -o CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_gt_remapper.cc -[ 98%] Linking CXX executable vcf2genomicsdb -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf2genomicsdb.dir/link.txt --verbose=1 -[ 99%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_bgen.cc.o +[ 95%] Linking CXX shared library libgenomicsdbjni.so +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/cmake -E cmake_link_script CMakeFiles/genomicsdbjni.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,--dependency-file=CMakeFiles/genomicsdbjni.dir/link.d -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -shared -Wl,-soname,libgenomicsdbjni.so -o libgenomicsdbjni.so CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/usr/lib/x86_64-linux-gnu/openmpi/lib:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib libgenomicsdb.so.1.5.4 ../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl ../../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 95%] Built target genomicsdbjni +[ 96%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_bgen.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_bgen.cc.o -MF CMakeFiles/ctests.dir/src/test_bgen.cc.o.d -o CMakeFiles/ctests.dir/src/test_bgen.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_bgen.cc -[ 99%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_query_variants.cc.o +[ 96%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_query_variants.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_query_variants.cc.o -MF CMakeFiles/ctests.dir/src/test_query_variants.cc.o.d -o CMakeFiles/ctests.dir/src/test_query_variants.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_query_variants.cc -[ 99%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_mem_utils.cc.o +[ 96%] Linking CXX executable create_genomicsdb_workspace +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/create_genomicsdb_workspace.dir/link.txt --verbose=1 +[ 96%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_mem_utils.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_mem_utils.cc.o -MF CMakeFiles/ctests.dir/src/test_mem_utils.cc.o.d -o CMakeFiles/ctests.dir/src/test_mem_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_mem_utils.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/consolidate_genomicsdb_array.dir/link.d CMakeFiles/consolidate_genomicsdb_array.dir/src/consolidate_genomicsdb_array.cc.o -o consolidate_genomicsdb_array -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 99%] Built target consolidate_genomicsdb_array -[ 99%] Linking CXX executable api_tests -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/cmake -E cmake_link_script CMakeFiles/api_tests.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/vcf2genomicsdb.dir/link.d CMakeFiles/vcf2genomicsdb.dir/src/vcf2genomicsdb.cc.o -o vcf2genomicsdb -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl +[ 97%] Linking CXX executable vcfdiff +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfdiff.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/create_genomicsdb_workspace.dir/link.d CMakeFiles/create_genomicsdb_workspace.dir/src/create_genomicsdb_workspace.cc.o -o create_genomicsdb_workspace -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 99%] Built target vcf2genomicsdb +[ 97%] Built target create_genomicsdb_workspace In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, @@ -5682,15 +5693,40 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/vcfdiff.dir/link.d CMakeFiles/vcfdiff.dir/src/vcfdiff.cc.o -o vcfdiff -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 97%] Built target vcfdiff +[ 97%] Linking CXX executable test_genomicsdb_demo +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_genomicsdb_demo.dir/link.txt --verbose=1 +[ 97%] Linking CXX executable api_tests +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/cmake -E cmake_link_script CMakeFiles/api_tests.dir/link.txt --verbose=1 +[ 98%] Linking CXX executable consolidate_genomicsdb_array +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/consolidate_genomicsdb_array.dir/link.txt --verbose=1 +[ 98%] Linking CXX executable vcf_histogram +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf_histogram.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/test_genomicsdb_demo.dir/link.d CMakeFiles/test_genomicsdb_demo.dir/src/test_genomicsdb_demo.cc.o -o test_genomicsdb_demo -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../../main/libgenomicsdb.a ../../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../../../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 98%] Built target test_genomicsdb_demo +[ 98%] Linking CXX executable test_genomicsdb_importer +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_genomicsdb_importer.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/consolidate_genomicsdb_array.dir/link.d CMakeFiles/consolidate_genomicsdb_array.dir/src/consolidate_genomicsdb_array.cc.o -o consolidate_genomicsdb_array -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 98%] Built target consolidate_genomicsdb_array /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/api_tests.dir/link.d CMakeFiles/api_tests.dir/src/ctest_main.cc.o CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o -o api_tests -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib ../../main/libgenomicsdb.a ../../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../../../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/libCatch2.a /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/cmake -E tar xzf /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/../inputs/test.tgz make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 99%] Built target api_tests -[ 99%] Linking CXX executable test_genomicsdb_importer -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_genomicsdb_importer.dir/link.txt --verbose=1 +[ 98%] Built target api_tests +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/vcf_histogram.dir/link.d CMakeFiles/vcf_histogram.dir/src/vcf_histogram.cc.o -o vcf_histogram -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 98%] Built target vcf_histogram /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/test_genomicsdb_importer.dir/link.d CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o -o test_genomicsdb_importer -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 99%] Built target test_genomicsdb_importer +[ 98%] Built target test_genomicsdb_importer +[ 99%] Linking CXX executable vcf2genomicsdb +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf2genomicsdb.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/vcf2genomicsdb.dir/link.d CMakeFiles/vcf2genomicsdb.dir/src/vcf2genomicsdb.cc.o -o vcf2genomicsdb -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 99%] Built target vcf2genomicsdb [ 99%] Linking CXX executable vcf2genomicsdb_init cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf2genomicsdb_init.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/vcf2genomicsdb_init.dir/link.d CMakeFiles/vcf2genomicsdb_init.dir/src/vcf2genomicsdb_init.cc.o -o vcf2genomicsdb_init -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl @@ -5744,7 +5780,6 @@ Use -Xlint:-options to suppress this message. Use -proc:none to disable annotation processing. [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBVidMapProto.java:[93,30] non-transient instance field of a serializable class declared with a non-serializable type -[WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBTimer.java:[37,14] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/model/ImportConfig.java:[76,36] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBImportConfiguration.java:[177,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBImportConfiguration.java:[2228,30] non-transient instance field of a serializable class declared with a non-serializable type @@ -5753,6 +5788,7 @@ [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/Coordinates.java:[3035,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/Coordinates.java:[3987,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBCallsetsMapProto.java:[139,30] non-transient instance field of a serializable class declared with a non-serializable type +[WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBTimer.java:[37,14] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/exception/GenomicsDBException.java:[28,8] serializable class org.genomicsdb.exception.GenomicsDBException has no definition of serialVersionUID [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[91,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[91,13] org.json.simple.JSONObject in org.json.simple has been deprecated @@ -5840,7 +5876,7 @@ processing is enabled explicitly (-proc:only, -proc:full). Use -Xlint:-options to suppress this message. Use -proc:none to disable annotation processing. -[WARNING] No processor claimed any of these annotations: /org.testng.annotations.BeforeClass,/org.testng.annotations.Test,/org.testng.annotations.DataProvider,/org.testng.annotations.BeforeMethod,/org.testng.annotations.AfterMethod +[WARNING] No processor claimed any of these annotations: /org.testng.annotations.Test,/org.testng.annotations.BeforeClass,/org.testng.annotations.DataProvider,/org.testng.annotations.BeforeMethod,/org.testng.annotations.AfterMethod [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[171,9] org.json.simple.parser.JSONParser in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[171,33] org.json.simple.parser.JSONParser in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[175,13] org.json.simple.JSONObject in org.json.simple has been deprecated @@ -5887,18 +5923,18 @@ [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ -[INFO] Total time: 3.945 s -[INFO] Finished at: 2025-08-31T02:49:06-12:00 +[INFO] Total time: 6.767 s +[INFO] Finished at: 2026-10-04T11:20:37+14:00 [INFO] ------------------------------------------------------------------------ make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' jh_build -O--buildsystem=cmake debian/rules override_dh_auto_test-arch make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' dh_auto_test -a || true - cd obj-x86_64-linux-gnu && make -j12 test ARGS\+=--verbose ARGS\+=-j12 + cd obj-x86_64-linux-gnu && make -j16 test ARGS\+=--verbose ARGS\+=-j16 make[2]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Running tests... -/usr/bin/ctest --force-new-ctest-process --verbose -j12 +/usr/bin/ctest --force-new-ctest-process --verbose -j16 UpdateCTestConfiguration from :/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/DartConfiguration.tcl UpdateCTestConfiguration from :/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/DartConfiguration.tcl Test project /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu @@ -5981,7 +6017,31 @@ 12: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_expressions 12: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 12: Test timeout computed to be: 10000000 -1: Randomness seeded to: 3898324273 +test 13 + Start 13: test_filter_api + +13: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_filter_api +13: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test +13: Test timeout computed to be: 10000000 +test 14 + Start 14: test_mem_utils + +14: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_mem_utils +14: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test +14: Test timeout computed to be: 10000000 +test 15 + Start 15: test_uri + +15: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_uri +15: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test +15: Test timeout computed to be: 10000000 +test 16 + Start 16: test_utils + +16: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_utils +16: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test +16: Test timeout computed to be: 10000000 +1: Randomness seeded to: 371449803 1: [TileDB::ArraySchema] Error: Cannot set attributes; No attributes given. 1: [TileDB::ArraySchema] Error: Cannot set attributes; The number of attributes must be positive. 1: [TileDB::ArraySchema] Error: Cannot set attributes; Duplicate attribute names. @@ -6148,21 +6208,21 @@ 2: Usage: test_print_array_schema /path/to/TileDBArray 3: No arguments specified 3: Usage: test_print_book_keeping /path/to/TileDBArray/ -4: Randomness seeded to: 3613065519 +4: Randomness seeded to: 2903414777 4: =============================================================================== 4: test cases: 1 | 1 passed 4: assertions: - none - 4: -6: Randomness seeded to: 2526658393 +6: Randomness seeded to: 1925124606 6: =============================================================================== 6: All tests passed (335 assertions in 13 test cases) 6: -9: Randomness seeded to: 3686227514 -9: [TileDB::utils] Error: (set_working_dir) Failed to set_working_dir as /tmp/TileDBTestqgzfzw/WORKSPACE.nonexistent does not exist -9: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=/tmp/TileDBTestgSZlV6/WORKSPACE errno=2(No such file or directory) -9: [TileDB::FileSystem] Error: (get_files) Cannot open directory path=/tmp/TileDBTestgSZlV6/WORKSPACE errno=2(No such file or directory) -9: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=/tmp/TileDBTestDXepqO/WORKSPACE errno=2(No such file or directory) -10: Randomness seeded to: 177800640 +9: Randomness seeded to: 1186642629 +9: [TileDB::utils] Error: (set_working_dir) Failed to set_working_dir as /tmp/TileDBTest5fEMAq/WORKSPACE.nonexistent does not exist +9: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=/tmp/TileDBTestuMKKMN/WORKSPACE errno=2(No such file or directory) +9: [TileDB::FileSystem] Error: (get_files) Cannot open directory path=/tmp/TileDBTestuMKKMN/WORKSPACE errno=2(No such file or directory) +9: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=/tmp/TileDBTest53UKdZ/WORKSPACE errno=2(No such file or directory) +10: Randomness seeded to: 1140145117 10: [TileDB::utils] Error: (gzip_handle_error) Cannot decompress with GZIP: inflate error: Z_BUF_ERROR 10: [TileDB::Codec] Error: Could not decompress with GZIP. 10: [TileDB::utils] Error: (gzip_handle_error) Cannot decompress with GZIP: inflate error: Z_BUF_ERROR @@ -6173,7 +6233,7 @@ 10: =============================================================================== 10: All tests passed (31 assertions in 5 test cases) 10: -11: Randomness seeded to: 3534133727 +11: Randomness seeded to: 2128262119 11: [TileDB::CodecFilter] Error: virtual method should be overridden. 11: [TileDB::CodecFilter] Error: virtual method should be overridden. 11: [TileDB::CodecFilter] Error: virtual method should be overridden. @@ -6205,56 +6265,7 @@ 11: =============================================================================== 11: All tests passed (192 assertions in 2 test cases) 11: - 1/22 Test #1: test_array_schema ................ Passed 0.02 sec - 2/22 Test #2: test_print_array_schema .......... Passed 0.02 sec - 3/22 Test #3: test_print_book_keeping .......... Passed 0.02 sec - 4/22 Test #4: test_sparse_array_benchmark ...... Passed 0.02 sec - 5/22 Test #6: test_array_schema_api ............ Passed 0.01 sec - 6/22 Test #11: test_codec_filter ................ Passed 0.00 sec - 7/22 Test #10: test_codec ....................... Passed 0.01 sec -test 13 - Start 13: test_filter_api - -13: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_filter_api -13: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test -13: Test timeout computed to be: 10000000 -test 14 - Start 14: test_mem_utils - -14: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_mem_utils -14: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test -14: Test timeout computed to be: 10000000 -test 15 - Start 15: test_uri - -15: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_uri -15: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test -15: Test timeout computed to be: 10000000 -test 16 - Start 16: test_utils - -16: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_utils -16: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test -16: Test timeout computed to be: 10000000 -test 17 - Start 17: test_posixfs - -17: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_posixfs -17: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test -17: Test timeout computed to be: 10000000 -test 18 - Start 18: test_storage_buffer - -18: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_storage_buffer -18: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test -18: Test timeout computed to be: 10000000 -test 19 - Start 19: ci_tests - -19: Test command: /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/run_examples.sh "&&" "echo" "Running diff with expected_results" "&&" "diff" "log" "/build/reproducible-path/genomicsdb-1.5.5/examples/expected_results" "&&" "/build/reproducible-path/genomicsdb-1.5.5/examples/run_examples_parallel.sh" -19: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples -19: Test timeout computed to be: 10000000 -12: Randomness seeded to: 2156394127 +12: Randomness seeded to: 143621431 12: [TileDB::Expression] Error: (evaluate_cell) Parser evaluate error, possibly due to bad filter expression: 12: Index to variable "a1" is out of bounds. 12: [TileDB::Expression] Error: (evaluate_cell) Parser evaluate error, possibly due to bad filter expression: @@ -6300,20 +6311,57 @@ 12: [TileDB::Expression] Error: (evaluate) Initialization not completed 12: [TileDB::Expression] Error: (evaluate_cell) Initialization not completed 12: [TileDB::Expression] Error: (evaluate_cell) Only expressions evaluating to booleans is supported -14: Randomness seeded to: 453696237 -14: Sun Aug 31 02:49:07 2025 Memory stats Tracking memory usage START size=6MB resident=4MB share=3MB text=496KB lib=0 data=536KB dt=0 -15: Randomness seeded to: 3631184361 +14: Randomness seeded to: 2724175086 +14: Sun Oct 4 11:20:38 2026 Memory stats Tracking memory usage START size=6MB resident=4MB share=3MB text=496KB lib=0 data=536KB dt=0 +15: Randomness seeded to: 3978077951 15: =============================================================================== 15: All tests passed (131 assertions in 2 test cases) 15: + 1/22 Test #1: test_array_schema ................ Passed 0.03 sec + 2/22 Test #2: test_print_array_schema .......... Passed 0.03 sec + 3/22 Test #3: test_print_book_keeping .......... Passed 0.03 sec + 4/22 Test #4: test_sparse_array_benchmark ...... Passed 0.03 sec + 5/22 Test #6: test_array_schema_api ............ Passed 0.02 sec + 6/22 Test #10: test_codec ....................... Passed 0.01 sec + 7/22 Test #11: test_codec_filter ................ Passed 0.01 sec 8/22 Test #15: test_uri ......................... Passed 0.01 sec +test 17 + Start 17: test_posixfs + +17: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_posixfs +17: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test +17: Test timeout computed to be: 10000000 +test 18 + Start 18: test_storage_buffer + +18: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_storage_buffer +18: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test +18: Test timeout computed to be: 10000000 +test 19 + Start 19: ci_tests + +19: Test command: /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/run_examples.sh "&&" "echo" "Running diff with expected_results" "&&" "diff" "log" "/build/reproducible-path/genomicsdb-1.5.5/examples/expected_results" "&&" "/build/reproducible-path/genomicsdb-1.5.5/examples/run_examples_parallel.sh" +19: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples +19: Test timeout computed to be: 10000000 test 20 Start 20: ctests 20: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests "-d" "yes" 20: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp 20: Test timeout computed to be: 10000000 -16: Randomness seeded to: 416498752 +test 21 + Start 21: api_tests + +21: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/api_tests "-d" "yes" +21: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp +21: Test timeout computed to be: 10000000 +test 22 + Start 22: tools_tests + +22: Test command: /build/reproducible-path/genomicsdb-1.5.5/tests/test_tools.sh "/build/reproducible-path/genomicsdb-1.5.5/tests/inputs/vcfs" "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools" "1" +22: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools +22: Test timeout computed to be: 10000000 +16: Randomness seeded to: 2220758282 16: [TileDB::utils] Error: (RLE_compress) Failed compressing with RLE; invalid input buffer format 16: [TileDB::utils] Error: (RLE_compress) Failed compressing with RLE; output buffer overflow 16: [TileDB::utils] Error: (RLE_compress_coords_row) Failed compressing coordinates with RLE; invalid buffer format @@ -6327,30 +6375,27 @@ 16: [TileDB::FileSystem] Error: (delete_file) Cannot remove file path=/non-existent-dir/file errno=2(No such file or directory) 16: [TileDB::FileSystem] Error: (delete_dir) Could not recursively delete directory path=/non-existent-dir/dir errno=2(No such file or directory) 16: [TileDB::FileSystem] Error: (move_path) Cannot rename path path=/non-existent-dir/old errno=2(No such file or directory) -17: Randomness seeded to: 3522118462 -17: [TileDB::FileSystem] Error: (create_dir) Cannot create directory; Directory already exists path=/tmp/TileDBTestvhPOti/test_posixfs_dirdir -17: [TileDB::FileSystem] Error: (create_dir) Cannot create directory path=/non-existent-dir/foo errno=2(No such file or directory) -17: [TileDB::FileSystem] Error: (create_file) Failed to create file path=/tmp/TileDBTestvhPOti/test_posixfs_dirdir errno=21(Is a directory) -17: [TileDB::FileSystem] Error: (create_file) Failed to create file path=/tmp/TileDBTestvhPOti/test_posixfs_dirdir errno=21(Is a directory) -17: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=non-existent-dir errno=2(No such file or directory) -17: [TileDB::FileSystem] Error: (move_path) Cannot rename path path=non-existent-dir errno=2(No such file or directory) 12: [TileDB::Expression] Error: (init) Parser SetExpr error for expression 'resolve(a1) &= ""': Too few parameters passed to function "resolve". 12: [TileDB::Expression] Error: (init) Expression parsing for dense arrays not yet implemented 12: =============================================================================== 12: All tests passed (3334 assertions in 83 test cases) 12: - 9/22 Test #12: test_expressions ................. Passed 0.02 sec -test 21 - Start 21: api_tests - -21: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/api_tests "-d" "yes" -21: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp -21: Test timeout computed to be: 10000000 -18: Randomness seeded to: 2716479418 -18: [TileDB::StorageBuffer] Error: (StorageBuffer) Cannot perform buffered reads or writes as there is no buffer chunk size set path=/tmp/TileDBTestLJT6qt/test-file -18: [TileDB::StorageBuffer] Error: (StorageBuffer) File does not seem to exist or is of zero length path=/tmp/TileDBTestLJT6qt/test-file-non-existent errno=2(No such file or directory) -18: [TileDB::StorageBuffer] Error: (StorageBuffer) Cannot perform buffered reads or writes as there is no buffer chunk size set path=/tmp/TileDBTestLJT6qt/test-file -18: [TileDB::StorageBuffer] Error: (read_buffer) Cannot read past the filesize from buffer path=/tmp/TileDBTestLJT6qt/test-file +13: Randomness seeded to: 1895494670 +13: =============================================================================== +13: All tests passed (317 assertions in 3 test cases) +13: +17: Randomness seeded to: 2617158743 +17: [TileDB::FileSystem] Error: (create_dir) Cannot create directory; Directory already exists path=/tmp/TileDBTest9Fpm5R/test_posixfs_dirdir +17: [TileDB::FileSystem] Error: (create_dir) Cannot create directory path=/non-existent-dir/foo errno=2(No such file or directory) +17: [TileDB::FileSystem] Error: (create_file) Failed to create file path=/tmp/TileDBTest9Fpm5R/test_posixfs_dirdir errno=21(Is a directory) +17: [TileDB::FileSystem] Error: (create_file) Failed to create file path=/tmp/TileDBTest9Fpm5R/test_posixfs_dirdir errno=21(Is a directory) +17: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=non-existent-dir errno=2(No such file or directory) +17: [TileDB::FileSystem] Error: (move_path) Cannot rename path path=non-existent-dir errno=2(No such file or directory) +18: Randomness seeded to: 377539646 +18: [TileDB::StorageBuffer] Error: (StorageBuffer) Cannot perform buffered reads or writes as there is no buffer chunk size set path=/tmp/TileDBTesttQRiNS/test-file +18: [TileDB::StorageBuffer] Error: (StorageBuffer) File does not seem to exist or is of zero length path=/tmp/TileDBTesttQRiNS/test-file-non-existent errno=2(No such file or directory) +18: [TileDB::StorageBuffer] Error: (StorageBuffer) Cannot perform buffered reads or writes as there is no buffer chunk size set path=/tmp/TileDBTesttQRiNS/test-file +18: [TileDB::StorageBuffer] Error: (read_buffer) Cannot read past the filesize from buffer path=/tmp/TileDBTesttQRiNS/test-file 18: [TileDB::FileSystem] Error: (write_to_file) Cannot write to file; File opening error path=/non-existent-file errno=13(Permission denied) 18: [TileDB::StorageBuffer] Error: (write_buffer) Cannot write bytes path=/non-existent-file errno=13(Permission denied) 18: [TileDB::StorageBuffer] Error: (finalize) Could not finalize buffer after compression path=/non-existent-file errno=13(Permission denied) @@ -6365,72 +6410,52 @@ 18: [TileDB::StorageBuffer] Error: (write_buffer) Compression type=1000 not supported in StorageBuffer 18: [TileDB::StorageBuffer] Error: (finalize) Could not finalize buffer after compression path=/non-existent-file errno=2(No such file or directory) 18: [TileDB::StorageBuffer] Error: (read_buffer) Compression type=1000 for read_buffer not supported for CompressedStorageBuffer -18: [TileDB::StorageBuffer] Error: (read_buffer) Cannot read past the filesize from buffer path=/tmp/TileDBTesthky1bs/compressed_foo +18: [TileDB::StorageBuffer] Error: (read_buffer) Cannot read past the filesize from buffer path=/tmp/TileDBTestfFLVnf/compressed_foo + 9/22 Test #12: test_expressions ................. Passed 0.15 sec +10/22 Test #13: test_filter_api .................. Passed 0.15 sec 19: Example 1: Running ./tiledb_workspace_group_create... -13: Randomness seeded to: 1311462208 -13: =============================================================================== -13: All tests passed (317 assertions in 3 test cases) -13: 19: Example 1: Done running ./tiledb_workspace_group_create -21: Randomness seeded to: 903597040 +21: Randomness seeded to: 3867426491 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. -21: 02:49:07.425 ERROR NativeGenomicsDB - pid=3569503 tid=3569503 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container +21: 11:20:38.729 ERROR NativeGenomicsDB - pid=3327510 tid=3327510 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. -21: 02:49:07.425 ERROR NativeGenomicsDB - pid=3569503 tid=3569503 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container +21: 11:20:38.729 ERROR NativeGenomicsDB - pid=3327510 tid=3327510 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported -10/22 Test #13: test_filter_api .................. Passed 0.03 sec 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. -21: 02:49:07.425 ERROR NativeGenomicsDB - pid=3569503 tid=3569503 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container +21: 11:20:38.729 ERROR NativeGenomicsDB - pid=3327510 tid=3327510 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. -21: 02:49:07.425 ERROR NativeGenomicsDB - pid=3569503 tid=3569503 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container/ws +21: 11:20:38.729 ERROR NativeGenomicsDB - pid=3327510 tid=3327510 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container/ws 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. -21: 02:49:07.425 ERROR NativeGenomicsDB - pid=3569503 tid=3569503 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-ws +21: 11:20:38.729 ERROR NativeGenomicsDB - pid=3327510 tid=3327510 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-ws 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported 21: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=non-existent-ws errno=2(No such file or directory) 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. -21: 02:49:07.425 ERROR NativeGenomicsDB - pid=3569503 tid=3569503 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container/ws[TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=non-existent-ws errno=2(No such file or directory) +21: 11:20:38.729 ERROR NativeGenomicsDB - pid=3327510 tid=3327510 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container/ws[TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=non-existent-ws errno=2(No such file or directory) 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported -test 22 - Start 22: tools_tests - -22: Test command: /build/reproducible-path/genomicsdb-1.5.5/tests/test_tools.sh "/build/reproducible-path/genomicsdb-1.5.5/tests/inputs/vcfs" "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools" "1" -22: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools -22: Test timeout computed to be: 10000000 19: Example 2: Running ./tiledb_ls_workspaces... 19: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=&& errno=2(No such file or directory) 19: Example 2: Done running ./tiledb_ls_workspaces 19: Example 3: Running ./tiledb_array_create_dense... -19: Example 3: Done running ./tiledb_array_create_dense -19: Example 4: Running ./tiledb_array_create_sparse... -19: Example 4: Done running ./tiledb_array_create_sparse -19: Example 5: Running ./tiledb_array_primitive... -19: Array name: my_workspace/dense_arrays/my_array_A -19: Attributes: a1 a2 a3 -19: The array is dense -19: Array name: my_workspace/sparse_arrays/my_array_B -19: Attributes: a1 a2 a3 -19: The array is sparse -19: Example 5: Done running ./tiledb_array_primitive -19: Example 6: Running ./tiledb_array_write_dense_1... -20: 02:49:07.571 DEBUG NativeGenomicsDB - pid=3569500 tid=3569500 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -20: 02:49:07.571 WARN NativeGenomicsDB - pid=3569500 tid=3569500 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -20: 02:49:07.572 DEBUG NativeGenomicsDB - pid=3569500 tid=3569500 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -20: Randomness seeded to: 2443208808 +20: 11:20:38.748 DEBUG NativeGenomicsDB - pid=3327508 tid=3327508 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +20: 11:20:38.748 WARN NativeGenomicsDB - pid=3327508 tid=3327508 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +20: 11:20:38.749 DEBUG NativeGenomicsDB - pid=3327508 tid=3327508 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +20: Randomness seeded to: 4195641071 20: 0.002 s: Check loader configuration with json file -20: 02:49:07.572 DEBUG NativeGenomicsDB - pid=3569500 tid=3569500 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -20: 02:49:07.572 WARN NativeGenomicsDB - pid=3569500 tid=3569500 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -20: 02:49:07.572 DEBUG NativeGenomicsDB - pid=3569500 tid=3569500 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +20: 11:20:38.749 DEBUG NativeGenomicsDB - pid=3327508 tid=3327508 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +20: 11:20:38.749 WARN NativeGenomicsDB - pid=3327508 tid=3327508 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +20: 11:20:38.749 DEBUG NativeGenomicsDB - pid=3327508 tid=3327508 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 20: 0.001 s: Check configuration with json file -20: 02:49:07.573 DEBUG NativeGenomicsDB - pid=3569500 tid=3569500 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -20: 02:49:07.573 WARN NativeGenomicsDB - pid=3569500 tid=3569500 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -20: 02:49:07.573 DEBUG NativeGenomicsDB - pid=3569500 tid=3569500 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +20: 11:20:38.750 DEBUG NativeGenomicsDB - pid=3327508 tid=3327508 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +20: 11:20:38.750 WARN NativeGenomicsDB - pid=3327508 tid=3327508 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +20: 11:20:38.750 DEBUG NativeGenomicsDB - pid=3327508 tid=3327508 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 20: 0.001 s: Check configuration with json file and shared posifs optim -20: 02:49:07.573 DEBUG NativeGenomicsDB - pid=3569500 tid=3569500 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -20: 02:49:07.573 WARN NativeGenomicsDB - pid=3569500 tid=3569500 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -20: 02:49:07.573 DEBUG NativeGenomicsDB - pid=3569500 tid=3569500 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +19: Example 3: Done running ./tiledb_array_create_dense +20: 11:20:38.751 DEBUG NativeGenomicsDB - pid=3327508 tid=3327508 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +20: 11:20:38.751 WARN NativeGenomicsDB - pid=3327508 tid=3327508 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +20: 11:20:38.751 DEBUG NativeGenomicsDB - pid=3327508 tid=3327508 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 20: 0.001 s: Compare configuration with json file and string 20: 0.000 s: genotype_ordering haploid_5_alleles 20: 0.000 s: genotype_ordering diploid_2_alleles @@ -6448,12 +6473,12 @@ 20: 0.000 s: multid_vector 2D_tuple_test 20: 0.000 s: pb_query_config_test 20: 0.001 s: pb_vid_mapping_test -20: 02:49:07.575 INFO NativeGenomicsDB - pid=3569500 tid=3569500 Contig/chromosome 2 begins at TileDB column 249250601 and intersects with contig/chromosome 1 that spans columns [0, 249250620] +20: 11:20:38.753 INFO NativeGenomicsDB - pid=3327508 tid=3327508 Contig/chromosome 2 begins at TileDB column 249250601 and intersects with contig/chromosome 1 that spans columns [0, 249250620] 20: 0.000 s: pb_overlapping_vid_mapping_test -20: 02:49:07.575 INFO NativeGenomicsDB - pid=3569500 tid=3569500 This is a test -20: 02:49:07.575 WARN NativeGenomicsDB - pid=3569500 tid=3569500 This is a test -20: 02:49:07.575 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 This is a test -20: 02:49:07.575 DEBUG NativeGenomicsDB - pid=3569500 tid=3569500 This is a test +20: 11:20:38.753 INFO NativeGenomicsDB - pid=3327508 tid=3327508 This is a test +20: 11:20:38.753 WARN NativeGenomicsDB - pid=3327508 tid=3327508 This is a test +20: 11:20:38.753 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 This is a test +20: 11:20:38.753 DEBUG NativeGenomicsDB - pid=3327508 tid=3327508 This is a test 20: This is a test 20: This is a test 20: This is a test @@ -6461,135 +6486,140 @@ 20: This is a once_only test 20: Trying format Hello1 Hello2 20: 0.000 s: test logger -20: 02:49:07.575 INFO NativeGenomicsDB - pid=3569500 tid=3569500 i=1 str=This is a test -20: 02:49:07.575 WARN NativeGenomicsDB - pid=3569500 tid=3569500 i=2 str=This is a test -20: 02:49:07.575 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 i=3 str=This is a test -20: 02:49:07.575 DEBUG NativeGenomicsDB - pid=3569500 tid=3569500 i=4 str=This is a test -20: 02:49:07.575 INFO NativeGenomicsDB - pid=3569500 tid=3569500 i=6 str=This is a once_only test -20: 02:49:07.575 WARN NativeGenomicsDB - pid=3569500 tid=3569500 i=7 str=This is a once_only test +20: 11:20:38.753 INFO NativeGenomicsDB - pid=3327508 tid=3327508 i=1 str=This is a test +20: 11:20:38.753 WARN NativeGenomicsDB - pid=3327508 tid=3327508 i=2 str=This is a test +20: 11:20:38.753 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 i=3 str=This is a test +20: 11:20:38.753 DEBUG NativeGenomicsDB - pid=3327508 tid=3327508 i=4 str=This is a test +20: 11:20:38.753 INFO NativeGenomicsDB - pid=3327508 tid=3327508 i=6 str=This is a once_only test +20: 11:20:38.753 WARN NativeGenomicsDB - pid=3327508 tid=3327508 i=7 str=This is a once_only test 20: 0.000 s: test logger format -20: 02:49:07.575 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 i=1 str=This is a test -20: 02:49:07.575 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 Test Exception -20: 02:49:07.575 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 Test Exception -20: 02:49:07.575 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 Test Exception -20: 02:49:07.575 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 Native Stack Trace: -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xaf712) [0x55f6ac0d9712] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x9fca2) [0x55f6ac0c9ca2] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x2568d8) [0x55f6ac2808d8] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x2573f8) [0x55f6ac2813f8] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x257870) [0x55f6ac281870] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22a583) [0x55f6ac254583] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22a8ec) [0x55f6ac2548ec] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x762f2) [0x55f6ac0a02f2] -20: /lib/x86_64-linux-gnu/libc.so.6(+0x29ca8) [0x7f2d51633ca8] -20: 02:49:07.575 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 Test Exception -20: 02:49:07.575 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 Native Stack Trace: -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xaf712) [0x55f6ac0d9712] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x9fccf) [0x55f6ac0c9ccf] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x2568d8) [0x55f6ac2808d8] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x2573f8) [0x55f6ac2813f8] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x257870) [0x55f6ac281870] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22a583) [0x55f6ac254583] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22a8ec) [0x55f6ac2548ec] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x762f2) [0x55f6ac0a02f2] -20: /lib/x86_64-linux-gnu/libc.so.6(+0x29ca8) [0x7f2d51633ca8] +20: 11:20:38.753 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 i=1 str=This is a test +20: 11:20:38.753 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 Test Exception +20: 11:20:38.753 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 Test Exception +20: 11:20:38.753 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 Test Exception +20: 11:20:38.753 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 Native Stack Trace: +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xaf712) [0x56399f541712] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x9fca2) [0x56399f531ca2] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x2568d8) [0x56399f6e88d8] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x2573f8) [0x56399f6e93f8] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x257870) [0x56399f6e9870] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22a583) [0x56399f6bc583] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22a8ec) [0x56399f6bc8ec] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x762f2) [0x56399f5082f2] +20: /lib/x86_64-linux-gnu/libc.so.6(+0x29ca8) [0x7f73a6c33ca8] +20: 11:20:38.753 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 Test Exception +20: 11:20:38.753 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 Native Stack Trace: +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xaf712) [0x56399f541712] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x9fccf) [0x56399f531ccf] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x2568d8) [0x56399f6e88d8] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x2573f8) [0x56399f6e93f8] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x257870) [0x56399f6e9870] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22a583) [0x56399f6bc583] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22a8ec) [0x56399f6bc8ec] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x762f2) [0x56399f5082f2] +20: /lib/x86_64-linux-gnu/libc.so.6(+0x29ca8) [0x7f73a6c33ca8] 20: 0.000 s: test logger exceptions -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xaf712) [0x55f6ac0d9712] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa31bf) [0x55f6ac0cd1bf] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x2568d8) [0x55f6ac2808d8] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x2573f8) [0x55f6ac2813f8] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x257870) [0x55f6ac281870] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22a583) [0x55f6ac254583] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22a8ec) [0x55f6ac2548ec] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x762f2) [0x55f6ac0a02f2] -20: /lib/x86_64-linux-gnu/libc.so.6(+0x29ca8) [0x7f2d51633ca8] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xaf712) [0x55f6ac0d9712] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa318b) [0x55f6ac0cd18b] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x2568d8) [0x55f6ac2808d8] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x2573f8) [0x55f6ac2813f8] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x257870) [0x55f6ac281870] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22a583) [0x55f6ac254583] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22a8ec) [0x55f6ac2548ec] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x762f2) [0x55f6ac0a02f2] -20: /lib/x86_64-linux-gnu/libc.so.6(+0x29ca8) [0x7f2d51633ca8] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xaf712) [0x56399f541712] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa31bf) [0x56399f5351bf] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x2568d8) [0x56399f6e88d8] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x2573f8) [0x56399f6e93f8] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x257870) [0x56399f6e9870] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22a583) [0x56399f6bc583] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22a8ec) [0x56399f6bc8ec] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x762f2) [0x56399f5082f2] +20: /lib/x86_64-linux-gnu/libc.so.6(+0x29ca8) [0x7f73a6c33ca8] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xaf712) [0x56399f541712] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa318b) [0x56399f53518b] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x2568d8) [0x56399f6e88d8] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x2573f8) [0x56399f6e93f8] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x257870) [0x56399f6e9870] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22a583) [0x56399f6bc583] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22a8ec) [0x56399f6bc8ec] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x762f2) [0x56399f5082f2] +20: /lib/x86_64-linux-gnu/libc.so.6(+0x29ca8) [0x7f73a6c33ca8] 20: This is a test 20: 0.000 s: test explicit logger -20: 02:49:07.575 DEBUG NativeGenomicsDB - pid=3569500 tid=3569500 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -20: 02:49:07.575 WARN NativeGenomicsDB - pid=3569500 tid=3569500 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -20: 02:49:07.575 DEBUG NativeGenomicsDB - pid=3569500 tid=3569500 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -20: 0.006 s: gvcf iterator -20: 02:49:07.581 DEBUG NativeGenomicsDB - pid=3569500 tid=3569500 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -20: 02:49:07.581 WARN NativeGenomicsDB - pid=3569500 tid=3569500 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -20: 02:49:07.581 DEBUG NativeGenomicsDB - pid=3569500 tid=3569500 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -20: 0.008 s: columnar_gvcf_iterator_test -20: 02:49:07.589 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 hts_plugin could not find /tmp/GenomicsDBzbRUNd +20: 11:20:38.753 DEBUG NativeGenomicsDB - pid=3327508 tid=3327508 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +20: 11:20:38.753 WARN NativeGenomicsDB - pid=3327508 tid=3327508 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +20: 11:20:38.754 DEBUG NativeGenomicsDB - pid=3327508 tid=3327508 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +19: Example 4: Running ./tiledb_array_create_sparse... +20: 0.007 s: gvcf iterator +20: 11:20:38.761 DEBUG NativeGenomicsDB - pid=3327508 tid=3327508 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +20: 11:20:38.761 WARN NativeGenomicsDB - pid=3327508 tid=3327508 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +20: 11:20:38.761 DEBUG NativeGenomicsDB - pid=3327508 tid=3327508 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +19: Example 4: Done running ./tiledb_array_create_sparse +19: Example 5: Running ./tiledb_array_primitive... +19: Array name: my_workspace/dense_arrays/my_array_A +19: Attributes: a1 a2 a3 +19: The array is dense +19: Array name: my_workspace/sparse_arrays/my_array_B +19: Attributes: a1 a2 a3 +19: The array is sparse +20: 0.011 s: columnar_gvcf_iterator_test +20: 11:20:38.771 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 hts_plugin could not find /tmp/GenomicsDBJsz2vW 20: [TileDB] Error: No TileDB support for URL=dfdfd://ddd. -20: 02:49:07.589 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 htslib_plugin could not open dfdfd://ddd +20: 11:20:38.771 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 htslib_plugin could not open dfdfd://ddd 20: No TileDB support for URL=dfdfd://ddd -20: 02:49:07.589 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 hts_plugin could not find /tmp/GenomicsDBzbRUNd/foo -20: 02:49:07.589 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 hts_plugin could not find /tmp/GenomicsDBzbRUNd/foo +20: 11:20:38.771 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 hts_plugin could not find /tmp/GenomicsDBJsz2vW/foo +20: 11:20:38.771 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 hts_plugin could not find /tmp/GenomicsDBJsz2vW/foo +19: Example 5: Done running ./tiledb_array_primitive 20: [TileDB::FileSystem] Error: (write_to_file) Cannot write to file; File opening error path=/dfdfd/dfdfd/non-existent-file errno=2(No such file or directory) -20: 02:49:07.589 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 hts_plugin write /dfdfd/dfdfd/non-existent-file error [TileDB::FileSystem] Error: (write_to_file) Cannot write to file; File opening error path=/dfdfd/dfdfd/non-existent-file errno=2(No such file or directory) +20: 11:20:38.771 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 hts_plugin write /dfdfd/dfdfd/non-existent-file error [TileDB::FileSystem] Error: (write_to_file) Cannot write to file; File opening error path=/dfdfd/dfdfd/non-existent-file errno=2(No such file or directory) 20: [TileDB::FileSystem] Error: (read_from_file) Cannot read from file; File opening error path=non-existent-file errno=2(No such file or directory) -20: 02:49:07.589 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 hts_plugin read non-existent-file error [TileDB::FileSystem] Error: (read_from_file) Cannot read from file; File opening error path=non-existent-file errno=2(No such file or directory) +20: 11:20:38.771 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 hts_plugin read non-existent-file error [TileDB::FileSystem] Error: (read_from_file) Cannot read from file; File opening error path=non-existent-file errno=2(No such file or directory) 20: 0.000 s: test htslib plugin 20: 0.000 s: alleles_combiner 20: 0.000 s: gt_remapper +19: Example 6: Running ./tiledb_array_write_dense_1... 17: [TileDB::FileSystem] Error: (delete_dir) Could not recursively delete directory path=non-existent-dir errno=2(No such file or directory) 17: [TileDB::FileSystem] Error: (get_files) Cannot open directory path=non-existent-dir errno=2(No such file or directory) -21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. -21: 0.815 s: utils -21: 0.000 s: api empty_args 16: =============================================================================== 16: All tests passed (86 assertions in 6 test cases) 16: -11/22 Test #16: test_utils ....................... Passed 0.84 sec -9: 7e820c3ee657b1a27a56a7be9d202a7a7e820c3ee657b1a27a56a7be9d202a7a[TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestsdMtCH/test_file -9: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestsdMtCH/test_file -21: 0.015 s: api query_variants direct DP -21: 0.005 s: api query_variants direct DP with huge row range -21: 0.005 s: api query_variants direct DP with huge disjoint row ranges -21: 0.008 s: api query_variants direct DP with range composed of multiple points -21: 0.009 s: api query_variants direct DP with range composed of overlapping ranges -21: 02:49:08.286 ERROR NativeGenomicsDB - pid=3569503 tid=3569503 Query interval 0:-100-1 is out of bounds -21: 0.004 s: api query_variants direct DP with invalid row range -21: 0.013 s: api query_variants direct DP and GT -14: Sun Aug 31 02:49:08 2025 Memory stats Tracking memory usage END size=6MB resident=4MB share=4MB text=496KB lib=0 data=536KB dt=0 -14: Test rusage -14: user cpu time=0seconds 2266microseconds -14: sys cpu time=0seconds 0microseconds -14: maximum resident set size: 4400KB -14: =============================================================================== -14: test cases: 1 | 1 passed -14: assertions: - none - -14: -12/22 Test #14: test_mem_utils ................... Passed 1.00 sec -21: 0.185 s: api query_variants direct DP and GT with PP -21: 02:49:08.485 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.485 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.485 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.491 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.491 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.491 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.496 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.496 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.496 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 0.012 s: api query_variants with json -21: 02:49:08.496 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.496 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.496 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +11/22 Test #16: test_utils ....................... Passed 0.45 sec +9: 7e820c3ee657b1a27a56a7be9d202a7a7e820c3ee657b1a27a56a7be9d202a7a[TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestx39Pb0/test_file +9: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestx39Pb0/test_file +21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. +21: 0.402 s: utils +21: 0.000 s: api empty_args +17: [TileDB::FileSystem] Error: (delete_file) Cannot remove file path=/tmp/TileDBTestKVnlHS/test_posixfs_dirfile/foo1 errno=2(No such file or directory) +21: 0.022 s: api query_variants direct DP +21: 0.008 s: api query_variants direct DP with huge row range +21: 0.008 s: api query_variants direct DP with huge disjoint row ranges +21: 0.012 s: api query_variants direct DP with range composed of multiple points +21: 0.012 s: api query_variants direct DP with range composed of overlapping ranges +21: 11:20:39.198 ERROR NativeGenomicsDB - pid=3327510 tid=3327510 Query interval 0:-100-1 is out of bounds +21: 0.005 s: api query_variants direct DP with invalid row range +21: 0.020 s: api query_variants direct DP and GT +17: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestXuutx1/test_posixfs_dirread_write/foo +17: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestXuutx1/test_posixfs_dirread_write/foo +17: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestXuutx1/test_posixfs_dirread_write/foo +21: 0.036 s: api query_variants direct DP and GT with PP +21: 11:20:39.255 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.256 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.256 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.264 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.264 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.264 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.272 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.272 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.272 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 0.018 s: api query_variants with json +21: 11:20:39.273 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.273 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.273 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/ws/t0_1_2/.__consolidation_lock -21: 02:49:08.501 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.501 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.502 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.507 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.507 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.507 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 0.011 s: api query variants with json string -21: 02:49:08.507 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.507 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.508 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 0.005 s: api query variants with enabled shared posixfs optimizations +21: 11:20:39.281 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.281 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.281 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.289 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.289 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.289 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 0.017 s: api query variants with json string +21: 11:20:39.305 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.305 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.305 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 0.024 s: api query variants with enabled shared posixfs optimizations 21: ---------------- 21: Interval:[0,9223372036854775806] 21: @@ -6646,7 +6676,7 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] DP:76 -21: 0.018 s: api query_variant_calls direct +21: 0.127 s: api query_variant_calls direct 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -6678,8 +6708,7 @@ 9: =============================================================================== 9: All tests passed (10488239 assertions in 9 test cases) 9: -13/22 Test #9: test_tiledb_utils ................ Passed 1.15 sec -21: 0.017 s: api query_variant_calls direct DP and GT +21: 0.028 s: api query_variant_calls direct DP and GT 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -6708,10 +6737,10 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 0.017 s: api query_variant_calls direct DP and GT with PP -21: 02:49:08.565 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.565 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.565 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 0.026 s: api query_variant_calls direct DP and GT with PP +21: 11:20:39.496 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.496 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.496 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -6740,20 +6769,20 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] DP:76 -21: 02:49:08.571 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.571 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.571 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.575 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.575 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.575 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 0.011 s: api query_variant_calls with json -21: 02:49:08.575 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.575 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.576 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.576 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.576 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.576 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.576 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.505 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.505 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.505 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.511 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.511 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.511 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 0.016 s: api query_variant_calls with json +21: 11:20:39.512 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.512 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.512 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.513 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.513 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.513 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.513 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -6782,13 +6811,13 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 02:49:08.582 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.582 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.583 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.583 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.583 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.583 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.583 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.522 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.522 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.523 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.523 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.523 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.523 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.523 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -6817,22 +6846,25 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 02:49:08.589 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.589 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.590 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.590 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.590 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.590 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.590 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead -21: 0.005 s: Try query with contig intervals instead of tiledb column intervals -21: 0.019 s: api query_variant_calls with protobuf -21: 02:49:08.595 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.595 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.595 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.595 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.595 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.596 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.596 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.533 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.533 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.533 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +12/22 Test #9: test_tiledb_utils ................ Passed 0.97 sec +21: 11:20:39.534 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.534 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.534 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.534 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +17: [TileDB::FileSystem] Error: (read_from_file) Cannot read from file; File opening error path=non-existent-dir/foo errno=2(No such file or directory) +17: [TileDB::FileSystem] Error: (write_to_file) Cannot write to file; File opening error path=non-existent-dir/foo errno=2(No such file or directory) +21: 0.008 s: Try query with contig intervals instead of tiledb column intervals +21: 0.028 s: api query_variant_calls with protobuf +21: 11:20:39.540 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.540 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.541 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.541 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.541 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.542 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.542 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -6861,13 +6893,13 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 02:49:08.602 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.602 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.602 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.602 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.602 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.602 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.602 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.552 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.552 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.552 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.553 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.553 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.554 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.554 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -6896,22 +6928,32 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 02:49:08.608 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.608 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.608 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.609 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.609 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.609 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.609 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead -21: 0.005 s: Try query with a filter -21: 0.019 s: api query_variant_calls with protobuf -21: 02:49:08.614 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.614 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.614 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.614 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.614 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.615 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.615 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.565 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.565 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.565 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.566 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.566 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.566 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.566 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +14: Sun Oct 4 11:20:39 2026 Memory stats Tracking memory usage END size=6MB resident=4MB share=4MB text=496KB lib=0 data=536KB dt=0 +14: Test rusage +14: user cpu time=0seconds 2703microseconds +14: sys cpu time=0seconds 0microseconds +14: maximum resident set size: 4408KB +14: =============================================================================== +14: test cases: 1 | 1 passed +14: assertions: - none - +14: +13/22 Test #14: test_mem_utils ................... Passed 1.00 sec +21: 0.010 s: Try query with a filter +21: 0.035 s: api query_variant_calls with protobuf +21: 11:20:39.575 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.575 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.576 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.576 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.576 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.577 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.577 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -6940,13 +6982,13 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 02:49:08.621 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.621 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.621 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.621 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.622 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.622 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.622 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.587 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.587 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.587 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.588 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.588 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.589 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.589 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -6975,22 +7017,22 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 02:49:08.629 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.629 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.629 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.630 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.630 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.630 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.630 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead -21: 0.005 s: Try query with a filter and workspace with GT ploidy -21: 0.020 s: api query_variant_calls with protobuf -21: 02:49:08.634 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.634 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.634 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.634 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.634 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.634 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.634 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.599 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.599 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.599 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.600 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.600 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.601 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.601 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 0.008 s: Try query with a filter and workspace with GT ploidy +21: 0.032 s: api query_variant_calls with protobuf +21: 11:20:39.607 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.607 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.608 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.608 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.608 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.609 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.609 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7019,13 +7061,13 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 02:49:08.640 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.640 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.641 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.641 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.641 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.641 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.641 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.620 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.620 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.621 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.621 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.621 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.622 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.622 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7054,22 +7096,22 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 02:49:08.647 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.647 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.648 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.648 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.648 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.648 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.648 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead -21: 0.005 s: Try query with a filter and a small segment size to force TileDB buffers overflow -21: 0.018 s: api query_variant_calls with protobuf -21: 02:49:08.652 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.652 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.652 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.653 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.653 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.653 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.653 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.632 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.632 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.633 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.633 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.633 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.634 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.634 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 0.009 s: Try query with a filter and a small segment size to force TileDB buffers overflow +21: 0.034 s: api query_variant_calls with protobuf +21: 11:20:39.641 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.641 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.641 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.642 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.642 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.642 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.642 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7098,13 +7140,13 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 02:49:08.659 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.659 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.659 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.660 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.660 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.660 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.660 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.655 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.655 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.656 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.657 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.657 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.658 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.658 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7118,7 +7160,6 @@ 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 -17: [TileDB::FileSystem] Error: (delete_file) Cannot remove file path=/tmp/TileDBTestK0Ad65/test_posixfs_dirfile/foo1 errno=2(No such file or directory) 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 @@ -7134,22 +7175,23 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 02:49:08.666 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.666 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.666 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.667 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.667 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.667 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.667 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead -21: 0.005 s: Try query with POS and ROW with no match -21: 0.019 s: api query_variant_calls with protobuf -21: 02:49:08.671 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.671 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.671 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.671 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.671 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.672 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.672 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.669 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.669 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.669 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.670 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.670 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.670 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.670 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 0.008 s: Try query with POS and ROW with no match +21: 0.036 s: api query_variant_calls with protobuf +21: 11:20:39.677 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.677 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.678 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.678 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.678 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.679 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.679 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +19: Example 6: Done running ./tiledb_array_write_dense_1 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7163,6 +7205,7 @@ 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 +19: Example 7: Running ./tiledb_array_write_sparse_1... 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 @@ -7178,13 +7221,14 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 02:49:08.678 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.678 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.679 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.679 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.679 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.679 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.679 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +17: [TileDB::FileSystem] Error: (read_from_file) Cannot open simultaneously for reads/writes path=test_posixfs_dir_locking/foo +21: 11:20:39.690 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.690 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.690 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.691 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.691 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.691 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.691 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7213,25 +7257,22 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 02:49:08.685 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.685 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -17: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestAWAsiD/test_posixfs_dirread_write/foo -17: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestAWAsiD/test_posixfs_dirread_write/foo -17: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestAWAsiD/test_posixfs_dirread_write/foo -21: 02:49:08.686 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.686 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.686 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.686 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.686 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead -21: 0.005 s: Try query with POS and ROW -21: 0.020 s: api query_variant_calls with protobuf -21: 02:49:08.691 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.691 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.691 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.691 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.691 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.692 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.692 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.702 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.702 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.702 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.703 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.703 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.703 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.703 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 0.009 s: Try query with POS and ROW +21: 0.033 s: api query_variant_calls with protobuf +21: 11:20:39.710 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.710 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.711 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.711 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.711 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.712 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.712 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7260,13 +7301,13 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 02:49:08.698 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.698 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.698 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.698 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.698 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.699 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.699 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.721 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.721 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.722 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.722 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.722 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.723 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.723 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7295,22 +7336,22 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 02:49:08.704 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.704 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.705 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.705 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.705 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.705 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.705 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead -21: 0.005 s: Try query with ISHOMREF -21: 0.019 s: api query_variant_calls with protobuf -21: 02:49:08.710 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.710 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.710 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.710 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.710 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.710 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.710 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.732 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.732 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.733 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.733 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.733 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.734 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.734 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 0.008 s: Try query with ISHOMREF +21: 0.030 s: api query_variant_calls with protobuf +21: 11:20:39.740 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.740 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.741 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.741 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.741 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.741 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.741 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7339,13 +7380,13 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 02:49:08.716 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.716 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.717 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.717 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.717 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.717 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.717 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.751 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.751 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.751 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.752 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.752 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.752 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.752 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7374,22 +7415,22 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 02:49:08.723 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.723 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.724 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.724 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.724 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.724 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.724 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead -21: 0.005 s: Try query with ISHOMREF -21: 0.019 s: api query_variant_calls with protobuf -21: 02:49:08.728 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.728 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.728 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.729 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.729 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.729 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.729 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.762 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.762 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.762 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.763 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.763 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.763 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.763 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 0.007 s: Try query with ISHOMREF +21: 0.029 s: api query_variant_calls with protobuf +21: 11:20:39.769 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.769 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.769 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.770 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.770 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.770 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.770 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7418,13 +7459,13 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 02:49:08.735 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.735 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.735 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.736 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.736 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.736 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.736 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.780 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.780 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.780 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.781 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.781 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.781 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.781 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7453,22 +7494,22 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 02:49:08.742 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.742 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.742 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.742 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.742 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.742 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.742 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead -21: 0.005 s: Try query with ISHOMREF -21: 0.018 s: api query_variant_calls with protobuf -21: 02:49:08.746 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.746 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.747 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.747 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.747 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.747 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.747 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.790 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.790 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.790 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.791 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.791 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.791 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.791 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 0.008 s: Try query with ISHOMREF +21: 0.028 s: api query_variant_calls with protobuf +21: 11:20:39.797 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.797 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.798 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.798 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.798 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.798 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.798 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7497,13 +7538,13 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 02:49:08.753 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.753 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.753 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.754 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.754 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.754 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.754 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.807 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.807 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.808 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.809 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.809 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.809 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.809 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7532,36 +7573,73 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 02:49:08.760 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.760 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.760 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.760 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.760 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.761 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:08.761 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead -21: 0.005 s: Try query with ISHOMREF -21: 0.019 s: api query_variant_calls with protobuf -21: 0.003 s: Base configuration -21: 0.004 s: api query_variant_calls with protobuf and config -21: 02:49:08.770 ERROR NativeGenomicsDB - pid=3569503 tid=3569503 Could not parse query_configuration. Only protobuf QueryConfiguration binary strings accepted as input argument +21: 11:20:39.819 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.819 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.820 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.820 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.820 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.821 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:39.821 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 0.009 s: Try query with ISHOMREF +21: 0.031 s: api query_variant_calls with protobuf +21: 0.005 s: Base configuration +21: 0.011 s: api query_variant_calls with protobuf and config +21: 11:20:39.840 ERROR NativeGenomicsDB - pid=3327510 tid=3327510 Could not parse query_configuration. Only protobuf QueryConfiguration binary strings accepted as input argument 21: 0.000 s: Subset Array with pb string that is not Query or ExportConfiguration 21: 0.001 s: api query_variant_calls with protobuf and config -21: 0.003 s: Subset Array using QueryConfiguration -21: 0.004 s: api query_variant_calls with protobuf and config -21: 0.003 s: Subset Array using ExportConfiguration -21: 0.004 s: api query_variant_calls with protobuf and config -21: 0.003 s: Subset Array using QueryConfiguration - two intervals -21: 0.004 s: api query_variant_calls with protobuf and config -21: 0.004 s: Subset Array using QueryConfiguration - multiple queries -21: 0.005 s: api query_variant_calls with protobuf and config -21: 0.004 s: Test filter test for 0 -21: 0.004 s: api query_variant_calls with protobuf new -21: 0.004 s: Test filter test for 1 -21: 0.004 s: api query_variant_calls with protobuf new -21: 0.004 s: Test filter test for 2 -21: 0.004 s: api query_variant_calls with protobuf new -21: 0.004 s: Test filter test for 3 -21: 0.004 s: api query_variant_calls with protobuf new +17: [TileDB::FileSystem] Error: (~PosixFS) File does not seem to be closed path=test_dir_locking1/foo_sync +21: 0.005 s: Subset Array using QueryConfiguration +21: 0.007 s: api query_variant_calls with protobuf and config +21: 0.005 s: Subset Array using ExportConfiguration +21: 0.007 s: api query_variant_calls with protobuf and config +20: 11:20:39.859 INFO NativeGenomicsDB - pid=3327508 tid=3327508 Plink progress 3452039 / 6904084 = 50.00% +20: 11:20:39.859 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 PL field for sample: HG00141 row: 0 column: 12277 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648 +20: 11:20:39.859 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 GL field for sample: HG00141 row: 0 column: 12277 contains a strictly positive value or otherwise did not parse, full string nan, nan, nan +20: 11:20:39.859 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 PL field for sample: HG00141 row: 0 column: 12299 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648 +20: 11:20:39.859 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 GL field for sample: HG00141 row: 0 column: 12299 contains a strictly positive value or otherwise did not parse, full string nan, nan, nan +20: 11:20:39.859 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 PL field for sample: HG01958 row: 1 column: 12299 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648 +20: 11:20:39.859 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 GL field for sample: HG01958 row: 1 column: 12299 contains a strictly positive value or otherwise did not parse, full string nan, nan, nan +20: 11:20:39.859 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 PL field for sample: HG00141 row: 0 column: 12399 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648 +20: 11:20:39.859 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 GL field for sample: HG00141 row: 0 column: 12399 contains a strictly positive value or otherwise did not parse, full string nan, nan, nan +20: 11:20:39.859 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 PL field for sample: HG01958 row: 1 column: 12399 contains a negative value or otherwise did not parse, full string: 0, 1, -2147483648 +20: 11:20:39.859 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 GL field for sample: HG01958 row: 1 column: 12399 contains a strictly positive value or otherwise did not parse, full string nan, nan, nan +20: 11:20:39.859 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 GL field for sample: HG00141 row: 0 column: 12499 contains a strictly positive value or otherwise did not parse, full string nan, nan, nan, nan, nan, nan +20: 11:20:39.859 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 PL field for sample: HG01958 row: 1 column: 12499 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648, -2147483648, -2147483648, -2147483648 +21: 0.005 s: Subset Array using QueryConfiguration - two intervals +20: 11:20:39.859 WARN NativeGenomicsDB - pid=3327508 tid=3327508 GL probabilities at sample: HG01958 row: 1 column: 12499 sum to 0.8981071705534972, expected near 1. Generated BGEN may be invalid +21: 0.006 s: api query_variant_calls with protobuf and config +21: 0.006 s: Subset Array using QueryConfiguration - multiple queries +21: 0.008 s: api query_variant_calls with protobuf and config +20: 1.097 s: test bgen +20: 11:20:39.869 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 VariantStorageManagerException exception : Could not open workspace +20: 11:20:39.869 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 Could not open array non_existent_array in workspace /tmp/GenomicsDBEeELme/ws +20: 11:20:39.869 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 VariantQueryProcessorException : Could not open array non_existent_array at workspace /tmp/GenomicsDBEeELme/ws +20: 0.001 s: constructor +20: 11:20:39.870 DEBUG NativeGenomicsDB - pid=3327508 tid=3327508 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +20: 11:20:39.870 WARN NativeGenomicsDB - pid=3327508 tid=3327508 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +20: 11:20:39.870 DEBUG NativeGenomicsDB - pid=3327508 tid=3327508 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 0.006 s: Test filter test for 0 +21: 0.006 s: api query_variant_calls with protobuf new +20: 11:20:39.874 ERROR NativeGenomicsDB - pid=3327508 tid=3327508 Invalid query attribute : non_existent_attribute +20: 0.005 s: test basic queries +20: 11:20:39.875 INFO NativeGenomicsDB - pid=3327508 tid=3327508 Mem usage Check basic memory usage rss=49M +20: 0.000 s: check basic memory usage +20: =============================================================================== +20: All tests passed (1439 assertions in 34 test cases) +20: +20: 11:20:39.875 DEBUG NativeGenomicsDB - pid=3327508 tid=3327508 Deleting htslib_fs_adapter tiledb_ctx_map +17: [TileDB::FileSystem] Error: (~PosixFS) File does not seem to be closed path=test_dir_locking1/foo_no_close +14/22 Test #20: ctests ........................... Passed 1.30 sec +21: 0.006 s: Test filter test for 1 +21: 0.006 s: api query_variant_calls with protobuf new +21: 0.006 s: Test filter test for 2 +21: 0.006 s: api query_variant_calls with protobuf new +21: 0.006 s: Test filter test for 3 +21: 0.006 s: api query_variant_calls with protobuf new +17: =============================================================================== +17: All tests passed (258 assertions in 11 test cases) +17: +15/22 Test #17: test_posixfs ..................... Passed 1.34 sec 21: 273 {"HG00141":{"CHR":["1","1"],"POS":[12141,17385],"REF":["C","G"],"GT":["C/C","G/A"],"DP":[null,null]},"HG01530":{"CHR":["1"],"POS":[17385],"REF":["G"],"GT":["G/A"],"DP":[76]},"HG01958":{"CHR":["1","1"],"POS":[12145,17385],"REF":["C","G"],"GT":["C/C","T/T"],"DP":[null,120]}} 21: 21: 207 {"FIELD":["CHR","POS","REF","GT","DP"],"HG00141":[["1",12141,"C","C/C",null],["1",17385,"G","G/A",null]],"HG01530":[["1",17385,"G","G/A",76]],"HG01958":[["1",12145,"C","C/C",null],["1",17385,"G","T/T",120]]} @@ -7576,180 +7654,82 @@ 21: 21: 1999 {"HG00141":{"CHR":["1","1"],"POS":[12141,17385],"REF":["C","G"],"QUAL":[null,475.7699890136719],"FILTER":[null,"0"],"DP":[null,null],"BaseQRankSum":[null,-2.0959999561309816],"ClippingRankSum":[null,-1.8589999675750733],"DS":["1","1"],"HaplotypeScore":[null,null],"InbreedingCoeff":[null,null],"MLEAC":[null,"1, 5"],"MLEAF":[null,"0.500000, 1.200000"],"MQ":[null,31.719999313354493],"RAW_MQ":[null,5.5],"MQ0":[null,8],"MQRankSum":[null,-0.32899999618530276],"ReadPosRankSum":[null,0.004999999888241291],"PGT":[null,"0|1"],"PID":[null,"17385_G_A"],"AD":[null,"58, 22, 17"],"DP_FORMAT":[2,80],"GQ":[0,99],"GT":["C/C","G/A"],"MIN_DP":[0,null],"PL":["0, 0, 0","504, 0, 9807, 678, 1870, 2548"],"SB":[null,"58, 0, 22, 0"]},"HG01530":{"CHR":["1"],"POS":[17385],"REF":["G"],"QUAL":[989.77001953125],"FILTER":[null],"DP":[76],"BaseQRankSum":[1.0460000038146973],"ClippingRankSum":[-2.242000102996826],"DS":[null],"HaplotypeScore":[null],"InbreedingCoeff":[null],"MLEAC":["1, 0"],"MLEAF":["0.500000, 0.000000"],"MQ":[59.369998931884769],"RAW_MQ":[null],"MQ0":[0],"MQRankSum":[-0.4320000112056732],"ReadPosRankSum":[2.055000066757202],"PGT":[null],"PID":[null],"AD":["40, 36, 0"],"DP_FORMAT":[76],"GQ":[99],"GT":["G/A"],"MIN_DP":[null],"PL":["1018, 0, 1116, 1137, 1224, 2361"],"SB":["9, 31, 13, 23"]},"HG01958":{"CHR":["1","1"],"POS":[12145,17385],"REF":["C","G"],"QUAL":[null,3302.77001953125],"FILTER":[null,"0"],"DP":[null,120],"BaseQRankSum":[null,-2.0739998817443849],"ClippingRankSum":[null,0.5550000071525574],"DS":["1",null],"HaplotypeScore":[null,null],"InbreedingCoeff":[null,null],"MLEAC":[null,"2, 7"],"MLEAF":[null,"1.000000, 0.700000"],"MQ":[null,29.81999969482422],"RAW_MQ":[null,2.5],"MQ0":[null,3],"MQRankSum":[null,-1.36899995803833],"ReadPosRankSum":[null,-0.10100000351667404],"PGT":[null,"0|1"],"PID":[null,"17385_G_T"],"AD":[null,"0, 120, 37"],"DP_FORMAT":[3,120],"GQ":[0,99],"GT":["C/C","T/T"],"MIN_DP":[0,null],"PL":["0, 0, 0","3336, 358, 0, 4536, 958, 7349"],"SB":[null,"0, 0, 0, 0"]}} 21: -21: 0.024 s: api query_variant_calls with JSONVariantCallProcessor +21: 0.037 s: api query_variant_calls with JSONVariantCallProcessor 21: 0.000 s: Test genomicsdb demo test case -21: 0.124 s: api generate_vcf direct -21: 02:49:08.950 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.950 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.950 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 0.006 s: api generate_vcf with json -21: 02:49:08.957 DEBUG NativeGenomicsDB - pid=3569503 tid=3569670 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.957 WARN NativeGenomicsDB - pid=3569503 tid=3569670 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.957 DEBUG NativeGenomicsDB - pid=3569503 tid=3569673 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.957 WARN NativeGenomicsDB - pid=3569503 tid=3569673 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.957 DEBUG NativeGenomicsDB - pid=3569503 tid=3569672 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.957 WARN NativeGenomicsDB - pid=3569503 tid=3569672 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.957 DEBUG NativeGenomicsDB - pid=3569503 tid=3569675 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.957 WARN NativeGenomicsDB - pid=3569503 tid=3569675 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.957 DEBUG NativeGenomicsDB - pid=3569503 tid=3569671 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.957 WARN NativeGenomicsDB - pid=3569503 tid=3569671 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.957 DEBUG NativeGenomicsDB - pid=3569503 tid=3569670 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.957 DEBUG NativeGenomicsDB - pid=3569503 tid=3569673 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.957 DEBUG NativeGenomicsDB - pid=3569503 tid=3569677 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.957 WARN NativeGenomicsDB - pid=3569503 tid=3569677 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.957 DEBUG NativeGenomicsDB - pid=3569503 tid=3569672 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.957 DEBUG NativeGenomicsDB - pid=3569503 tid=3569674 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.957 WARN NativeGenomicsDB - pid=3569503 tid=3569674 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.957 DEBUG NativeGenomicsDB - pid=3569503 tid=3569675 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.957 DEBUG NativeGenomicsDB - pid=3569503 tid=3569676 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:08.957 WARN NativeGenomicsDB - pid=3569503 tid=3569676 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:08.957 DEBUG NativeGenomicsDB - pid=3569503 tid=3569671 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.957 DEBUG NativeGenomicsDB - pid=3569503 tid=3569677 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.958 DEBUG NativeGenomicsDB - pid=3569503 tid=3569674 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:08.958 DEBUG NativeGenomicsDB - pid=3569503 tid=3569676 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 0.153 s: api generate_vcf with json multiple threads -21: 02:49:09.110 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:09.110 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:09.110 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:09.110 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:09.110 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:09.111 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:09.111 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead -18: =============================================================================== -18: All tests passed (450703 assertions in 3 test cases) -18: -14/22 Test #18: test_storage_buffer .............. Passed 1.71 sec -21: 02:49:09.116 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:09.116 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:09.116 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:09.116 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:09.116 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:09.116 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:09.116 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:09.121 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 02:49:09.121 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:09.122 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:09.122 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 02:49:09.122 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 02:49:09.122 DEBUG NativeGenomicsDB - pid=3569503 tid=3569503 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 02:49:09.122 WARN NativeGenomicsDB - pid=3569503 tid=3569503 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +19: Example 7: Done running ./tiledb_array_write_sparse_1 +21: 0.032 s: api generate_vcf direct +21: 11:20:39.961 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.961 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.962 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 0.022 s: api generate_vcf with json +21: 11:20:39.984 DEBUG NativeGenomicsDB - pid=3327510 tid=3327739 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.984 WARN NativeGenomicsDB - pid=3327510 tid=3327739 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.984 DEBUG NativeGenomicsDB - pid=3327510 tid=3327741 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.984 WARN NativeGenomicsDB - pid=3327510 tid=3327741 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.984 DEBUG NativeGenomicsDB - pid=3327510 tid=3327740 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.984 WARN NativeGenomicsDB - pid=3327510 tid=3327740 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.984 DEBUG NativeGenomicsDB - pid=3327510 tid=3327742 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.984 WARN NativeGenomicsDB - pid=3327510 tid=3327742 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.984 DEBUG NativeGenomicsDB - pid=3327510 tid=3327741 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.984 DEBUG NativeGenomicsDB - pid=3327510 tid=3327739 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.984 DEBUG NativeGenomicsDB - pid=3327510 tid=3327743 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.984 WARN NativeGenomicsDB - pid=3327510 tid=3327743 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.984 DEBUG NativeGenomicsDB - pid=3327510 tid=3327744 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.984 WARN NativeGenomicsDB - pid=3327510 tid=3327744 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.984 DEBUG NativeGenomicsDB - pid=3327510 tid=3327745 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.984 WARN NativeGenomicsDB - pid=3327510 tid=3327745 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.984 DEBUG NativeGenomicsDB - pid=3327510 tid=3327746 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:39.984 WARN NativeGenomicsDB - pid=3327510 tid=3327746 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:39.984 DEBUG NativeGenomicsDB - pid=3327510 tid=3327742 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.984 DEBUG NativeGenomicsDB - pid=3327510 tid=3327740 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.984 DEBUG NativeGenomicsDB - pid=3327510 tid=3327743 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.984 DEBUG NativeGenomicsDB - pid=3327510 tid=3327745 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.984 DEBUG NativeGenomicsDB - pid=3327510 tid=3327746 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:39.984 DEBUG NativeGenomicsDB - pid=3327510 tid=3327744 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 0.033 s: api generate_vcf with json multiple threads +21: 11:20:40.016 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:40.016 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:40.016 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:40.017 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:40.017 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:40.017 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:40.017 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:40.024 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:40.024 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:40.024 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:40.025 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:40.025 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:40.025 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:40.025 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:40.031 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 11:20:40.031 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:40.031 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:40.032 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 11:20:40.032 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 11:20:40.032 DEBUG NativeGenomicsDB - pid=3327510 tid=3327510 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 11:20:40.032 WARN NativeGenomicsDB - pid=3327510 tid=3327510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: ---------------- 21: Interval:[0,1000000000] 21: -21: 0.013 s: api annotate query_variant_calls with test datasource 0 +21: 0.017 s: api annotate query_variant_calls with test datasource 0 21: =============================================================================== -21: All tests passed (1546 assertions in 26 test cases) +21: All tests passed (1548 assertions in 26 test cases) 21: -15/22 Test #21: api_tests ........................ Passed 1.71 sec -20: 02:49:09.252 INFO NativeGenomicsDB - pid=3569500 tid=3569500 Plink progress 3452039 / 6904084 = 50.00% -20: 02:49:09.252 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 PL field for sample: HG00141 row: 0 column: 12277 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648 -20: 02:49:09.252 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 GL field for sample: HG00141 row: 0 column: 12277 contains a strictly positive value or otherwise did not parse, full string nan, nan, nan -20: 02:49:09.252 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 PL field for sample: HG00141 row: 0 column: 12299 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648 -20: 02:49:09.252 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 GL field for sample: HG00141 row: 0 column: 12299 contains a strictly positive value or otherwise did not parse, full string nan, nan, nan -20: 02:49:09.252 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 PL field for sample: HG01958 row: 1 column: 12299 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648 -20: 02:49:09.252 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 GL field for sample: HG01958 row: 1 column: 12299 contains a strictly positive value or otherwise did not parse, full string nan, nan, nan -20: 02:49:09.252 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 PL field for sample: HG00141 row: 0 column: 12399 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648 -20: 02:49:09.252 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 GL field for sample: HG00141 row: 0 column: 12399 contains a strictly positive value or otherwise did not parse, full string nan, nan, nan -20: 02:49:09.252 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 PL field for sample: HG01958 row: 1 column: 12399 contains a negative value or otherwise did not parse, full string: 0, 1, -2147483648 -20: 02:49:09.252 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 GL field for sample: HG01958 row: 1 column: 12399 contains a strictly positive value or otherwise did not parse, full string nan, nan, nan -20: 02:49:09.252 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 GL field for sample: HG00141 row: 0 column: 12499 contains a strictly positive value or otherwise did not parse, full string nan, nan, nan, nan, nan, nan -20: 02:49:09.252 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 PL field for sample: HG01958 row: 1 column: 12499 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648, -2147483648, -2147483648, -2147483648 -20: 02:49:09.252 WARN NativeGenomicsDB - pid=3569500 tid=3569500 GL probabilities at sample: HG01958 row: 1 column: 12499 sum to 0.8981071705534972, expected near 1. Generated BGEN may be invalid -20: 1.792 s: test bgen -20: 02:49:09.381 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 VariantStorageManagerException exception : Could not open workspace -20: 02:49:09.381 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 Could not open array non_existent_array in workspace /tmp/GenomicsDBqfKOxh/ws -20: 02:49:09.381 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 VariantQueryProcessorException : Could not open array non_existent_array at workspace /tmp/GenomicsDBqfKOxh/ws -20: 0.001 s: constructor -20: 02:49:09.381 DEBUG NativeGenomicsDB - pid=3569500 tid=3569500 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -20: 02:49:09.381 WARN NativeGenomicsDB - pid=3569500 tid=3569500 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -20: 02:49:09.382 DEBUG NativeGenomicsDB - pid=3569500 tid=3569500 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -20: 02:49:09.385 ERROR NativeGenomicsDB - pid=3569500 tid=3569500 Invalid query attribute : non_existent_attribute -20: 0.003 s: test basic queries -20: 02:49:09.385 INFO NativeGenomicsDB - pid=3569500 tid=3569500 Mem usage Check basic memory usage rss=50M -20: 0.000 s: check basic memory usage -20: =============================================================================== -20: All tests passed (1439 assertions in 34 test cases) -20: -20: 02:49:09.385 DEBUG NativeGenomicsDB - pid=3569500 tid=3569500 Deleting htslib_fs_adapter tiledb_ctx_map -17: [TileDB::FileSystem] Error: (read_from_file) Cannot read from file; File opening error path=non-existent-dir/foo errno=2(No such file or directory) -17: [TileDB::FileSystem] Error: (write_to_file) Cannot write to file; File opening error path=non-existent-dir/foo errno=2(No such file or directory) -16/22 Test #20: ctests ........................... Passed 1.98 sec -17: test_posixfs: src/catch2/../catch2/internal/catch_output_redirect.hpp:40: void Catch::OutputRedirect::activate(): Assertion `!m_redirectActive && "redirect is already active"' failed. -17: -17: ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -17: test_posixfs is a Catch2 v3.7.1 host application. -17: Run with -? for options -17: -17: ------------------------------------------------------------------------------- -17: Test PosixFS parallel operations -17: ------------------------------------------------------------------------------- -17: ./genomicsdb-tiledb/test/src/storage_manager/test_posixfs.cc:216 -17: ............................................................................... -17: -17: ./genomicsdb-tiledb/test/src/storage_manager/test_posixfs.cc:216: FAILED: -17: {Unknown expression after the reported line} -17: due to a fatal error condition: -17: SIGABRT - Abort (abnormal termination) signal -17: -17: =============================================================================== -17: test cases: 7 | 6 passed | 1 failed -17: assertions: 108 | 107 passed | 1 failed -17: -17/22 Test #17: test_posixfs .....................Subprocess aborted***Exception: 2.13 sec -Randomness seeded to: 3522118462 -[TileDB::FileSystem] Error: (create_dir) Cannot create directory; Directory already exists path=/tmp/TileDBTestvhPOti/test_posixfs_dirdir -[TileDB::FileSystem] Error: (create_dir) Cannot create directory path=/non-existent-dir/foo errno=2(No such file or directory) -[TileDB::FileSystem] Error: (create_file) Failed to create file path=/tmp/TileDBTestvhPOti/test_posixfs_dirdir errno=21(Is a directory) -[TileDB::FileSystem] Error: (create_file) Failed to create file path=/tmp/TileDBTestvhPOti/test_posixfs_dirdir errno=21(Is a directory) -[TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=non-existent-dir errno=2(No such file or directory) -[TileDB::FileSystem] Error: (move_path) Cannot rename path path=non-existent-dir errno=2(No such file or directory) -[TileDB::FileSystem] Error: (delete_dir) Could not recursively delete directory path=non-existent-dir errno=2(No such file or directory) -[TileDB::FileSystem] Error: (get_files) Cannot open directory path=non-existent-dir errno=2(No such file or directory) -[TileDB::FileSystem] Error: (delete_file) Cannot remove file path=/tmp/TileDBTestK0Ad65/test_posixfs_dirfile/foo1 errno=2(No such file or directory) -[TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestAWAsiD/test_posixfs_dirread_write/foo -[TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestAWAsiD/test_posixfs_dirread_write/foo -[TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestAWAsiD/test_posixfs_dirread_write/foo -[TileDB::FileSystem] Error: (read_from_file) Cannot read from file; File opening error path=non-existent-dir/foo errno=2(No such file or directory) -[TileDB::FileSystem] Error: (write_to_file) Cannot write to file; File opening error path=non-existent-dir/foo errno=2(No such file or directory) -test_posixfs: src/catch2/../catch2/internal/catch_output_redirect.hpp:40: void Catch::OutputRedirect::activate(): Assertion `!m_redirectActive && "redirect is already active"' failed. - -~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -test_posixfs is a Catch2 v3.7.1 host application. -Run with -? for options - -------------------------------------------------------------------------------- -Test PosixFS parallel operations -------------------------------------------------------------------------------- -./genomicsdb-tiledb/test/src/storage_manager/test_posixfs.cc:216 -............................................................................... - -./genomicsdb-tiledb/test/src/storage_manager/test_posixfs.cc:216: FAILED: - {Unknown expression after the reported line} -due to a fatal error condition: - SIGABRT - Abort (abnormal termination) signal - -=============================================================================== -test cases: 7 | 6 passed | 1 failed -assertions: 108 | 107 passed | 1 failed - - -19: Example 6: Done running ./tiledb_array_write_dense_1 -19: Example 7: Running ./tiledb_array_write_sparse_1... -19: Example 7: Done running ./tiledb_array_write_sparse_1 -5: Randomness seeded to: 4175160375 +16/22 Test #21: api_tests ........................ Passed 1.45 sec +5: Randomness seeded to: 3463605968 5: [TileDB::Expression] Error: (evaluate_cell) NYI: Filter expressions do not handle empty values yet 5: =============================================================================== 5: All tests passed (527 assertions in 6 test cases) 5: -18/22 Test #5: test_array_iterator .............. Passed 2.71 sec -7: Randomness seeded to: 1089317460 -7: 10% [=== ] 20% [====== ] 30% [========= ] 40% [============ ] 50% [=============== ] 60% [================== ] 70% [===================== ] 80% [======================= ] 89% [========================== ] 99% [============================= ] 10% [=== ] 20% [====== ] 30% [========= ] 40% [============ ] 50% [=============== ] 60% [================== ] 70% [===================== ] 80% [======================= ] 89% [========================== ] 99% [============================= ] =============================================================================== -7: All tests passed (62100939 assertions in 4 test cases) -7: -19/22 Test #7: test_dense_array_api ............. Passed 5.94 sec +17/22 Test #5: test_array_iterator .............. Passed 1.59 sec +18: =============================================================================== +18: All tests passed (450703 assertions in 3 test cases) +18: +18/22 Test #18: test_storage_buffer .............. Passed 1.98 sec +7: Randomness seeded to: 4198698205 19: Example 8: Running ./tiledb_ls... 19: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=&& errno=2(No such file or directory) 19: Example 8: Done running ./tiledb_ls @@ -7775,11 +7755,15 @@ 19: Example 9: Done running ./tiledb_array_read_dense_1 19: Example 10: Running ./tiledb_array_write_dense_2... 19: Example 10: Done running ./tiledb_array_write_dense_2 -8: Randomness seeded to: 1118892261 +7: 10% [=== ] 20% [====== ] 30% [========= ] 40% [============ ] 50% [=============== ] 60% [================== ] 70% [===================== ] 80% [======================= ] 89% [========================== ] 99% [============================= ] 10% [=== ] 20% [====== ] 30% [========= ] 40% [============ ] 50% [=============== ] 60% [================== ] 70% [===================== ] 80% [======================= ] 89% [========================== ] 99% [============================= ] =============================================================================== +7: All tests passed (93019500 assertions in 4 test cases) +7: +19/22 Test #7: test_dense_array_api ............. Passed 6.90 sec +8: Randomness seeded to: 1151029575 8: 10% [=== ] 20% [====== ] 30% [========= ] 40% [============ ] 50% [=============== ] 60% [================== ] 70% [===================== ] 80% [======================= ] 89% [========================== ] 99% [============================= ] =============================================================================== -8: All tests passed (9410648 assertions in 15 test cases) +8: All tests passed (13435408 assertions in 15 test cases) 8: -20/22 Test #8: test_sparse_array_api ............ Passed 11.33 sec +20/22 Test #8: test_sparse_array_api ............ Passed 10.00 sec 19: Example 11: Running ./tiledb_array_read_dense_1... 19: a1 a2 (a3.first, a3.second) 19: ----------------------------------------- @@ -7814,6 +7798,8 @@ 19: Example 12: Done running ./tiledb_array_read_dense_2 19: Example 13: Running ./tiledb_array_write_dense_sorted... 19: Example 13: Done running ./tiledb_array_write_dense_sorted +22: Build with DISABLE_MPI option set, not running gt_mpi_gather tests +21/22 Test #22: tools_tests ...................... Passed 15.57 sec 19: Example 14: Running ./tiledb_array_read_dense_1... 19: a1 a2 (a3.first, a3.second) 19: ----------------------------------------- @@ -7836,8 +7822,6 @@ 19: Example 14: Done running ./tiledb_array_read_dense_1 19: Example 15: Running ./tiledb_array_update_dense_1... 19: Example 15: Done running ./tiledb_array_update_dense_1 -22: Build with DISABLE_MPI option set, not running gt_mpi_gather tests -21/22 Test #22: tools_tests ...................... Passed 22.73 sec 19: Example 16: Running ./tiledb_array_read_dense_1... 19: a1 a2 (a3.first, a3.second) 19: ----------------------------------------- @@ -8080,144 +8064,137 @@ 19: 0, 2, 3 2 third 19: 2, 1, 1 3 fourth 19: Example 42: Done running ./tiledb_array_3d -22/22 Test #19: ci_tests ......................... Passed 56.12 sec - -95% tests passed, 1 tests failed out of 22 +22/22 Test #19: ci_tests ......................... Passed 54.08 sec -Total Test time (real) = 56.16 sec +100% tests passed, 0 tests failed out of 22 -The following tests FAILED: - 17 - test_posixfs (Subprocess aborted) -Errors while running CTest -make[2]: *** [Makefile:74: test] Error 8 +Total Test time (real) = 54.12 sec make[2]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -dh_auto_test: error: cd obj-x86_64-linux-gnu && make -j12 test ARGS\+=--verbose ARGS\+=-j12 returned exit code 2 make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' debian/rules override_dh_auto_test-indep make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' dh_auto_build - cd obj-x86_64-linux-gnu && make -j12 "INSTALL=install --strip-program=true" VERBOSE=1 + cd obj-x86_64-linux-gnu && make -j16 "INSTALL=install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/genomicsdb-1.5.5 -B/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build.make genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build.make genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/depend +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/DependInfo.cmake "--color=" make -f CMakeFiles/protobuf_ep.dir/build.make CMakeFiles/protobuf_ep.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/CMakeFiles/protobuf_ep.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/CMakeFiles/protobuf_ep.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f CMakeFiles/protobuf_ep.dir/build.make CMakeFiles/protobuf_ep.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/DependInfo.cmake "--color=" -Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/bcf_sr_sort.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". +make[4]: Nothing to be done for 'CMakeFiles/protobuf_ep.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". -Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/bgzf.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". 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[ 0%] Built target protobuf_ep make -f src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build.make src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/resources /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target genomicsdb-hts -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build.make genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build.make src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 13%] Built target genomicsdb-hts -[ 13%] Built target PROTOBUF_GENERATED_CXX_TARGET +[ 0%] Built target PROTOBUF_GENERATED_CXX_TARGET make -f src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build.make src/main/CMakeFiles/GenomicsDB_library_object_files.dir/depend -Consolidate compiler generated dependencies of target TILEDB_CORE_OBJECTS make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target TILEDB_CORE_OBJECTS make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build.make genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build +Consolidate compiler generated dependencies of target genomicsdb-hts +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build.make genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' @@ -8237,20 +8214,21 @@ Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". 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Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". -make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/depend Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". -make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/depend Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". +[ 19%] Built target genomicsdb-hts Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". +[ 25%] Built target TILEDB_CORE_OBJECTS +make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/depend +make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/DependInfo.cmake "--color=" +Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". @@ -8262,10 +8240,16 @@ Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". @@ -8274,915 +8258,909 @@ Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". +[ 25%] Built target tiledb_static Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/compiler_depend.internal". -Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_shared -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 25%] Built target tiledb_static make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/depend make -f genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/depend make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/depend -make -f genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/depend -make -f genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/depend +make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/depend +make -f genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/DependInfo.cmake "--color=" -[ 26%] Built target tiledb_shared -make -f genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/depend +make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/depend +make -f genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/depend +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target tiledb_shared +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/compiler_depend.internal". +make -f genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/depend +make[4]: Nothing to be done for 'genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_array_schema -Consolidate compiler generated dependencies of target test_sparse_array_benchmark -Consolidate compiler generated dependencies of target test_array_iterator Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/compiler_depend.internal". -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_print_array_schema -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build -make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build -Consolidate compiler generated dependencies of target test_array_schema_api +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/DependInfo.cmake "--color=" Consolidate compiler generated dependencies of target test_print_book_keeping -make -f genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build -Consolidate compiler generated dependencies of target test_sparse_array_api -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target test_array_schema +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/compiler_depend.internal". +make -f genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/DependInfo.cmake "--color=" +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/compiler_depend.internal". make -f genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build -Consolidate compiler generated dependencies of target test_tiledb_utils -Consolidate compiler generated dependencies of target test_codec_filter -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/compiler_depend.internal". -make -f genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build -make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build'. +Consolidate compiler generated dependencies of target test_sparse_array_api make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/compiler_depend.internal". +make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build +Consolidate compiler generated dependencies of target test_dense_array_api +Consolidate compiler generated dependencies of target test_codec make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/compiler_depend.internal". -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build'. +make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build'. +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target test_print_array_schema +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target test_array_iterator make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_dense_array_api -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build'. +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build'. +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build +make -f genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build +Consolidate compiler generated dependencies of target test_sparse_array_benchmark +make -f genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/compiler_depend.internal". +[ 26%] Built target tiledb_shared +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/compiler_depend.internal". +make -f genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build -Consolidate compiler generated dependencies of target test_codec +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 26%] Built target test_array_schema -[ 27%] Built target test_array_iterator -Consolidate compiler generated dependencies of target GenomicsDB_library_object_files -[ 28%] Built target test_sparse_array_api -[ 29%] Built target test_sparse_array_benchmark -[ 29%] Built target test_print_book_keeping -[ 30%] Built target test_print_array_schema -make -f genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/depend -make -f genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/DependInfo.cmake "--color=" -[ 31%] Built target test_array_schema_api make -f genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/depend -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/depend -make -f src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build.make src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build -make -f genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/depend +[ 26%] Built target test_print_book_keeping +[ 28%] Built target test_print_array_schema +make -f genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/depend +make -f genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/DependInfo.cmake "--color=" +[ 28%] Built target test_dense_array_api +[ 29%] Built target test_codec make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/DependInfo.cmake "--color=" -[ 32%] Built target test_dense_array_api -[ 32%] Built target test_codec_filter -[ 33%] Built target test_tiledb_utils -[ 34%] Built target test_codec +make -f genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/depend +[ 30%] Built target test_sparse_array_benchmark +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/src/misc/test_uri.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/compiler_depend.internal". +[ 32%] Built target test_array_iterator +[ 32%] Built target test_sparse_array_api +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/depend +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/compiler_depend.internal". +[ 31%] Built target test_array_schema make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/depend -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/depend +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/DependInfo.cmake "--color=" -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o.d" is newer than depends file 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"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/link.d" is newer than depends file 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"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/compiler_depend.internal". +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build +Consolidate compiler generated dependencies of target test_mem_utils +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target GenomicsDB_library_object_files +Consolidate compiler generated dependencies of target tiledb_array_aio_read_dense +make -f genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build +Consolidate compiler generated dependencies of target test_posixfs +Consolidate compiler generated dependencies of target tiledb_array_3d +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build +Consolidate compiler generated dependencies of target test_codec_filter +Consolidate compiler generated dependencies of target test_tiledb_utils +make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/compiler_depend.internal". +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target test_expressions +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target test_storage_buffer +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target test_utils -Consolidate compiler generated dependencies of target test_posixfs -make -f genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build -make -f genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build -Dependencies file 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'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_mem_utils -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_aio_read_dense -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build'. +make[4]: Nothing to be done for 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'/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_aio_write_dense make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build +make -f genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build make -f genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build -Consolidate compiler generated dependencies of target tiledb_array_consolidate make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build -Consolidate compiler generated dependencies of target test_storage_buffer +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build'. make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/compiler_depend.internal". +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_array_3d -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build -[ 35%] Built target test_uri -[ 35%] Built target test_filter_api -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/depend +[ 34%] Built target test_tiledb_utils +[ 34%] Built target test_filter_api +[ 34%] Built target test_mem_utils make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/DependInfo.cmake "--color=" -[ 35%] Built target test_expressions -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/DependInfo.cmake "--color=" -[ 36%] Built target test_posixfs +[ 35%] Built target tiledb_array_consolidate +[ 35%] Built target test_codec_filter make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/depend -[ 36%] Built target tiledb_array_aio_read_dense +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/depend -[ 36%] Built target test_mem_utils +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/DependInfo.cmake "--color=" +[ 36%] Built target test_array_schema_api +[ 36%] Built target test_uri make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/DependInfo.cmake "--color=" +[ 37%] Built target test_utils +[ 37%] Built target test_storage_buffer make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/DependInfo.cmake "--color=" -[ 37%] Built target tiledb_array_aio_write_dense make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/depend -[ 41%] Built target test_utils +[ 37%] Built target test_expressions +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/depend +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/depend -[ 53%] Built target GenomicsDB_library_object_files -[ 54%] Built target tiledb_array_consolidate +[ 37%] Built target tiledb_array_aio_read_dense +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/depend +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/depend +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/depend -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/depend -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/depend +[ 38%] Built target tiledb_array_3d +[ 39%] Built target test_posixfs make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 40%] Built target tiledb_array_aio_write_dense cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/DependInfo.cmake "--color=" -[ 55%] Built target tiledb_array_3d -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/compiler_depend.internal". -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/depend +[ 40%] Built target tiledb_array_create_dense +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/depend +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target tiledb_array_create_dense -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/DependInfo.cmake "--color=" +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/compiler_depend.internal". +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/DependInfo.cmake "--color=" +[ 55%] Built target GenomicsDB_library_object_files +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/depend +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/DependInfo.cmake "--color=" +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/depend +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target tiledb_array_create_sparse +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/compiler_depend.internal". -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_iterator_sparse -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_array_iterator_dense -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/compiler_depend.internal". +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/compiler_depend.internal". -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledb_array_iterator_sparse Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledb_array_iterator_dense +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledb_array_parallel_consolidate_dense +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/compiler_depend.internal". +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build -Consolidate compiler generated dependencies of target tiledb_array_iterator_sparse_filter -[ 55%] Built target test_storage_buffer -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_parallel_consolidate_sparse +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/compiler_depend.internal". -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/compiler_depend.internal". -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/depend -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_parallel_read_dense_1 -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledb_array_parallel_consolidate_sparse +Consolidate compiler generated dependencies of target tiledb_array_parallel_write_dense_2 +Consolidate compiler generated dependencies of target tiledb_array_parallel_read_sparse_2 +Consolidate compiler generated dependencies of target tiledb_array_parallel_write_sparse_1 +Consolidate compiler generated dependencies of target tiledb_array_parallel_read_mpi_io_dense +Consolidate compiler generated dependencies of target tiledb_array_iterator_sparse_filter make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/compiler_depend.internal". -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake 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Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_array_parallel_consolidate_dense make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_parallel_read_dense_2 -Consolidate compiler generated dependencies of target tiledb_array_create_sparse make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build -Consolidate compiler generated dependencies of target tiledb_array_parallel_read_sparse_1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build -Consolidate compiler generated dependencies of target tiledb_array_parallel_read_mpi_io_dense -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build'. +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build'. +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target tiledb_array_parallel_read_dense_1 +Consolidate compiler generated dependencies of target tiledb_array_parallel_write_sparse_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/compiler_depend.internal". +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/compiler_depend.internal". +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build +Consolidate compiler generated dependencies of target tiledb_array_parallel_read_dense_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 55%] Built target tiledb_array_create_dense -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 56%] Built target tiledb_array_iterator_sparse -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/depend -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/depend -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/DependInfo.cmake "--color=" -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target tiledb_array_parallel_read_sparse_2 -[ 57%] Built target tiledb_array_iterator_sparse_filter -[ 57%] Built target tiledb_array_iterator_dense -[ 58%] Built target tiledb_array_parallel_consolidate_sparse +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 58%] Built target tiledb_array_parallel_consolidate_dense -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/depend -[ 60%] Built target tiledb_array_parallel_read_mpi_io_dense -[ 60%] Built target tiledb_array_parallel_read_dense_2 -[ 60%] Built target tiledb_array_parallel_read_sparse_1 -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/depend -[ 61%] Built target tiledb_array_create_sparse make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/depend -[ 61%] Built target tiledb_array_parallel_read_dense_1 +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/depend -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/compiler_depend.internal". -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/depend -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_array_parallel_write_dense_1 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/depend +[ 56%] Built target tiledb_array_create_sparse make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/compiler_depend.internal". -[ 62%] Built target tiledb_array_parallel_read_sparse_2 -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/compiler_depend.internal". -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/depend -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_parallel_write_dense_2 -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_parallel_write_sparse_1 -Consolidate compiler generated dependencies of target tiledb_array_parallel_write_sparse_2 -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_read_dense_2 -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/compiler_depend.internal". -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/DependInfo.cmake "--color=" +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build +Consolidate compiler generated dependencies of target tiledb_array_primitive +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_array_read_dense_sorted make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_array_read_dense_1 -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_primitive -Consolidate compiler generated dependencies of target tiledb_array_read_dense_3 -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/compiler_depend.internal". -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build -Consolidate compiler generated dependencies of target tiledb_array_read_sparse_1 +[ 57%] Built target tiledb_array_parallel_read_mpi_io_dense +[ 58%] Built target tiledb_array_parallel_consolidate_sparse +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/depend +[ 59%] Built target tiledb_array_parallel_consolidate_dense +[ 59%] Built target tiledb_array_iterator_sparse +[ 59%] Built target tiledb_array_iterator_dense +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/depend +[ 60%] Built target tiledb_array_iterator_sparse_filter +[ 60%] Built target tiledb_array_parallel_read_dense_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/DependInfo.cmake "--color=" +[ 60%] Built target tiledb_array_parallel_read_sparse_1 +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/depend +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/depend +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/DependInfo.cmake "--color=" +[ 61%] Built target tiledb_array_parallel_write_dense_2 +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 63%] Built target tiledb_array_parallel_write_dense_1 -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/compiler_depend.internal". -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/depend -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_read_sparse_2 -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build -Consolidate compiler generated dependencies of target tiledb_array_read_sparse_filter_1 -[ 63%] Built target tiledb_array_parallel_write_dense_2 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 63%] Built target tiledb_array_parallel_write_sparse_2 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/depend +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/depend -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 64%] Built target tiledb_array_parallel_write_sparse_1 -[ 65%] Built target tiledb_array_read_dense_1 -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build -[ 66%] Built target tiledb_array_read_dense_sorted -[ 67%] Built target tiledb_array_primitive +[ 62%] Built target tiledb_array_parallel_read_dense_2 +[ 62%] Built target tiledb_array_parallel_write_sparse_1 +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/depend +[ 62%] Built target tiledb_array_parallel_write_sparse_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/DependInfo.cmake "--color=" +[ 63%] Built target tiledb_array_parallel_read_sparse_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/depend -[ 67%] Built target tiledb_array_read_dense_2 +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/DependInfo.cmake "--color=" +[ 65%] Built target tiledb_array_parallel_write_dense_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/depend -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/DependInfo.cmake "--color=" -[ 68%] Built target tiledb_array_read_dense_3 -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/depend -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/DependInfo.cmake "--color=" +[ 65%] Built target tiledb_array_primitive +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/compiler_depend.internal". +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/depend +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/depend +Consolidate compiler generated dependencies of target tiledb_array_read_dense_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build'. +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/DependInfo.cmake "--color=" +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/compiler_depend.internal". +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/depend make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/DependInfo.cmake "--color=" -[ 68%] Built target tiledb_array_read_sparse_1 -[ 69%] Built target tiledb_array_read_sparse_2 +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/compiler_depend.internal". -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/depend +Consolidate compiler generated dependencies of target tiledb_array_update_dense_1 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/compiler_depend.internal". -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_read_sparse_filter_2 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/DependInfo.cmake "--color=" -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledb_array_read_dense_2 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/compiler_depend.internal". +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build +Consolidate compiler generated dependencies of target tiledb_array_read_sparse_1 +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/compiler_depend.internal". +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledb_array_read_sparse_filter_1 +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target tiledb_array_read_dense_sorted +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/compiler_depend.internal". +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/compiler_depend.internal". +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target tiledb_array_read_sparse_2 +Consolidate compiler generated dependencies of target tiledb_array_update_dense_2 +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledb_array_write_dense_2 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build -Consolidate compiler generated dependencies of target tiledb_array_update_sparse_1 -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_update_dense_1 +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build +Consolidate compiler generated dependencies of target tiledb_array_read_sparse_sorted +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/compiler_depend.internal". +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/compiler_depend.internal". +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/compiler_depend.internal". -[ 69%] Built target tiledb_array_read_sparse_filter_1 -Consolidate compiler generated dependencies of target tiledb_array_update_dense_2 -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_read_sparse_sorted +Consolidate compiler generated dependencies of target tiledb_array_read_dense_3 +Consolidate compiler generated dependencies of target tiledb_array_update_sparse_1 +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/compiler_depend.internal". -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/depend +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/compiler_depend.internal". +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build -Consolidate compiler generated dependencies of target tiledb_array_update_sparse_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build'. +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_write_dense_1 +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/compiler_depend.internal". +[ 66%] Built target tiledb_array_read_dense_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_array_write_dense_2 -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target tiledb_array_update_sparse_2 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/build +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_array_write_dense_sorted +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build +[ 66%] Built target tiledb_array_read_dense_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/compiler_depend.internal". +[ 67%] Built target tiledb_array_read_sparse_filter_2 +Consolidate compiler generated dependencies of target tiledb_array_write_dense_1 +Consolidate compiler generated dependencies of target tiledb_array_write_dense_sorted +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/depend +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 68%] Built target tiledb_array_read_dense_sorted +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/DependInfo.cmake "--color=" +[ 68%] Built target tiledb_array_read_sparse_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_array_write_sparse_1 -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build -Consolidate compiler generated dependencies of target tiledb_array_write_sparse_2 -[ 70%] Built target tiledb_array_read_sparse_filter_2 +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/depend +[ 68%] Built target tiledb_array_update_dense_1 +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 70%] Built target tiledb_array_update_dense_1 -[ 71%] Built target tiledb_array_read_sparse_sorted -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/compiler_depend.internal". -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/DependInfo.cmake "--color=" -[ 72%] Built target tiledb_array_update_dense_2 +[ 69%] Built target tiledb_array_read_sparse_sorted +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/depend +[ 69%] Built target tiledb_array_read_sparse_filter_1 +[ 69%] Built target tiledb_array_update_sparse_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/depend -[ 72%] Built target tiledb_array_write_dense_2 -Consolidate compiler generated dependencies of target tiledb_array_write_sparse_3 +[ 70%] Built target tiledb_array_update_dense_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/DependInfo.cmake "--color=" +[ 71%] Built target tiledb_array_read_dense_3 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 72%] Built target tiledb_array_update_sparse_1 -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 73%] Built target tiledb_array_write_dense_1 +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/depend +[ 72%] Built target tiledb_array_update_sparse_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build -[ 74%] Built target tiledb_array_update_sparse_2 -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/depend -[ 75%] Built target tiledb_array_write_dense_sorted make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/depend +[ 72%] Built target tiledb_array_write_dense_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/depend +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/depend -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/DependInfo.cmake "--color=" +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/compiler_depend.internal". +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/depend +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/depend +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 73%] Built target tiledb_array_write_dense_sorted cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/DependInfo.cmake "--color=" -[ 76%] Built target tiledb_array_write_sparse_1 -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/compiler_depend.internal". -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/depend -Consolidate compiler generated dependencies of target tiledb_array_write_sparse_4 +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/DependInfo.cmake "--color=" -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/compiler_depend.internal". -[ 76%] Built target tiledb_array_write_sparse_2 +Consolidate compiler generated dependencies of target tiledb_array_write_sparse_3 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/compiler_depend.internal". +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_config Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/compiler_depend.internal". -[ 77%] Built target tiledb_array_write_sparse_3 -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/compiler_depend.internal". +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target tiledb_array_write_sparse_4 +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/compiler_depend.internal". +[ 74%] Built target tiledb_array_write_dense_1 +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/depend -Consolidate compiler generated dependencies of target tiledb_catching_errors -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_clear_delete_move -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_ls +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 75%] Built target tiledb_array_read_sparse_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/compiler_depend.internal". +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build +Consolidate compiler generated dependencies of target tiledb_catching_errors +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/depend -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target tiledb_array_write_sparse_2 +Consolidate compiler generated dependencies of target tiledb_array_write_sparse_1 +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledb_metadata_consolidate +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/compiler_depend.internal". +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/DependInfo.cmake "--color=" -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledb_ls make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/compiler_depend.internal". +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build Consolidate compiler generated dependencies of target tiledb_delete make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_metadata_create Consolidate compiler generated dependencies of target tiledb_ls_workspaces make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledb_config make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build'. -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_metadata_consolidate make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build'. +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/compiler_depend.internal". +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/compiler_depend.internal". -[ 77%] Built target tiledb_array_write_sparse_4 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_metadata_iterator +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/compiler_depend.internal". +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/compiler_depend.internal". +[ 76%] Built target tiledb_array_write_sparse_3 +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/compiler_depend.internal". -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/depend +[ 76%] Built target tiledb_array_write_sparse_4 +Consolidate compiler generated dependencies of target tiledb_metadata_iterator +[ 77%] Built target tiledb_clear_delete_move +Consolidate compiler generated dependencies of target tiledb_metadata_primitive Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target tiledb_metadata_create +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/compiler_depend.internal". -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target tiledb_metadata_primitive -[ 77%] Built target tiledb_config +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build Consolidate compiler generated dependencies of target tiledb_metadata_read make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/depend -[ 78%] Built target tiledb_ls -[ 78%] Built target tiledb_ls_workspaces make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 78%] Built target tiledb_metadata_consolidate +[ 79%] Built target tiledb_catching_errors +[ 78%] Built target tiledb_config make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 80%] Built target tiledb_ls +[ 81%] Built target tiledb_array_write_sparse_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/DependInfo.cmake "--color=" +[ 82%] Built target tiledb_delete +[ 78%] Built target tiledb_array_write_sparse_2 +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/depend +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/depend -[ 79%] Built target tiledb_catching_errors -[ 80%] Built target tiledb_delete make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/DependInfo.cmake "--color=" make -f src/main/CMakeFiles/tiledbgenomicsdb.dir/build.make src/main/CMakeFiles/tiledbgenomicsdb.dir/depend -[ 81%] Built target tiledb_clear_delete_move -[ 81%] Built target tiledb_metadata_create make -f src/main/CMakeFiles/genomicsdb.dir/build.make src/main/CMakeFiles/genomicsdb.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/tiledbgenomicsdb.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdb.dir/DependInfo.cmake "--color=" +[ 82%] Built target tiledb_ls_workspaces +[ 82%] Built target tiledb_metadata_create +[ 83%] Built target tiledb_metadata_primitive +[ 83%] Built target tiledb_metadata_read +[ 84%] Built target tiledb_metadata_iterator +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_metadata_update -[ 82%] Built target tiledb_metadata_iterator -[ 83%] Built target tiledb_metadata_consolidate +Consolidate compiler generated dependencies of target tiledb_metadata_write +Dependencies file "src/main/CMakeFiles/tiledbgenomicsdb.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/tiledbgenomicsdb.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build -[ 84%] Built target tiledb_metadata_primitive -[ 84%] Built target tiledb_metadata_read -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_metadata_write -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/compiler_depend.internal". -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build -Dependencies file "src/main/CMakeFiles/tiledbgenomicsdb.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/tiledbgenomicsdb.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_workspace_group_create -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledbgenomicsdb make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build make -f src/main/CMakeFiles/genomicsdb.dir/build.make src/main/CMakeFiles/genomicsdb.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'src/main/CMakeFiles/genomicsdb.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/main/CMakeFiles/tiledbgenomicsdb.dir/build.make src/main/CMakeFiles/tiledbgenomicsdb.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'src/main/CMakeFiles/genomicsdb.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build'. @@ -9191,183 +9169,183 @@ make[4]: Nothing to be done for 'src/main/CMakeFiles/tiledbgenomicsdb.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 85%] Built target tiledb_metadata_update -[ 85%] Built target tiledb_metadata_write [ 85%] Built target genomicsdb -[ 86%] Built target tiledb_workspace_group_create -[ 86%] Built target tiledbgenomicsdb make -f src/test/cpp/CMakeFiles/ctests.dir/build.make src/test/cpp/CMakeFiles/ctests.dir/depend make -f src/test/cpp/CMakeFiles/api_tests.dir/build.make src/test/cpp/CMakeFiles/api_tests.dir/depend +[ 85%] Built target tiledbgenomicsdb make -f src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build.make src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/depend make -f tools/CMakeFiles/create_genomicsdb_workspace.dir/build.make tools/CMakeFiles/create_genomicsdb_workspace.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/DependInfo.cmake "--color=" -make -f tools/CMakeFiles/vcf2genomicsdb_init.dir/build.make tools/CMakeFiles/vcf2genomicsdb_init.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/DependInfo.cmake "--color=" +make -f tools/CMakeFiles/vcf2genomicsdb_init.dir/build.make tools/CMakeFiles/vcf2genomicsdb_init.dir/depend +[ 85%] Built target tiledb_metadata_write make -f tools/CMakeFiles/vcf2genomicsdb.dir/build.make tools/CMakeFiles/vcf2genomicsdb.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/DependInfo.cmake "--color=" +[ 86%] Built target tiledb_workspace_group_create make -f tools/CMakeFiles/consolidate_genomicsdb_array.dir/build.make tools/CMakeFiles/consolidate_genomicsdb_array.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.dir/DependInfo.cmake "--color=" -make -f tools/CMakeFiles/gt_mpi_gather.dir/build.make tools/CMakeFiles/gt_mpi_gather.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb_init.dir/DependInfo.cmake "--color=" +make -f tools/CMakeFiles/gt_mpi_gather.dir/build.make tools/CMakeFiles/gt_mpi_gather.dir/depend +make -f tools/CMakeFiles/vcfdiff.dir/build.make tools/CMakeFiles/vcfdiff.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/gt_mpi_gather.dir/DependInfo.cmake "--color=" -make -f tools/CMakeFiles/vcfdiff.dir/build.make tools/CMakeFiles/vcfdiff.dir/depend make -f tools/CMakeFiles/vcf_histogram.dir/build.make tools/CMakeFiles/vcf_histogram.dir/depend -make -f example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build.make example/CMakeFiles/test_genomicsdb_bcf_generator.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcfdiff.dir/DependInfo.cmake "--color=" +Dependencies file "src/test/cpp/CMakeFiles/api_tests.dir/src/ctest_main.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/compiler_depend.internal". +Dependencies file "src/test/cpp/CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/compiler_depend.internal". +Dependencies file "src/test/cpp/CMakeFiles/api_tests.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/compiler_depend.internal". +make -f example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build.make example/CMakeFiles/test_genomicsdb_bcf_generator.dir/depend +make -f example/CMakeFiles/test_genomicsdb_importer.dir/build.make example/CMakeFiles/test_genomicsdb_importer.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf_histogram.dir/DependInfo.cmake "--color=" +make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f example/CMakeFiles/test_genomicsdb_importer.dir/build.make example/CMakeFiles/test_genomicsdb_importer.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_bcf_generator.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_importer.dir/DependInfo.cmake "--color=" -Dependencies file "src/test/cpp/CMakeFiles/api_tests.dir/src/ctest_main.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/compiler_depend.internal". -Dependencies file "src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/src/test_genomicsdb_demo.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/compiler_depend.internal". -Dependencies file "tools/CMakeFiles/consolidate_genomicsdb_array.dir/src/consolidate_genomicsdb_array.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.dir/compiler_depend.internal". -Dependencies file "tools/CMakeFiles/vcf2genomicsdb_init.dir/src/vcf2genomicsdb_init.cc.o.d" is newer than depends file 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Dependencies file "tools/CMakeFiles/create_genomicsdb_workspace.dir/src/create_genomicsdb_workspace.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.dir/compiler_depend.internal". -Dependencies file "src/test/cpp/CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/compiler_depend.internal". -Dependencies file "src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/compiler_depend.internal". -Dependencies file "tools/CMakeFiles/create_genomicsdb_workspace.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.dir/compiler_depend.internal". -Dependencies file "tools/CMakeFiles/vcf2genomicsdb_init.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb_init.dir/compiler_depend.internal". -Dependencies file "tools/CMakeFiles/consolidate_genomicsdb_array.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.dir/compiler_depend.internal". -Dependencies file "src/test/cpp/CMakeFiles/api_tests.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/compiler_depend.internal". 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generated dependencies of target genomicsdbjni Consolidate compiler generated dependencies of target consolidate_genomicsdb_array make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build.make src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build -Dependencies file "tools/CMakeFiles/vcf_histogram.dir/src/vcf_histogram.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf_histogram.dir/compiler_depend.internal". +make -f tools/CMakeFiles/vcf2genomicsdb.dir/build.make tools/CMakeFiles/vcf2genomicsdb.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_genomicsdb_bcf_generator -Consolidate compiler generated dependencies of 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depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". +make[4]: Nothing to be done for 'tools/CMakeFiles/create_genomicsdb_workspace.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_pb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". -make -f example/CMakeFiles/test_genomicsdb_importer.dir/build.make example/CMakeFiles/test_genomicsdb_importer.dir/build -Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_query_variants.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". -Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target ctests make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'tools/CMakeFiles/vcf_histogram.dir/build'. +make[4]: Nothing to be done for 'src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f tools/CMakeFiles/vcf2genomicsdb_init.dir/build.make tools/CMakeFiles/vcf2genomicsdb_init.dir/build +make -f tools/CMakeFiles/consolidate_genomicsdb_array.dir/build.make tools/CMakeFiles/consolidate_genomicsdb_array.dir/build +make -f tools/CMakeFiles/gt_mpi_gather.dir/build.make tools/CMakeFiles/gt_mpi_gather.dir/build +make -f tools/CMakeFiles/vcfdiff.dir/build.make tools/CMakeFiles/vcfdiff.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f tools/CMakeFiles/vcf_histogram.dir/build.make tools/CMakeFiles/vcf_histogram.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'tools/CMakeFiles/consolidate_genomicsdb_array.dir/build'. +make[4]: Nothing to be done for 'src/test/cpp/CMakeFiles/api_tests.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f tools/CMakeFiles/vcfdiff.dir/build.make tools/CMakeFiles/vcfdiff.dir/build +make -f src/test/cpp/CMakeFiles/ctests.dir/build.make src/test/cpp/CMakeFiles/ctests.dir/build +make -f example/CMakeFiles/test_genomicsdb_importer.dir/build.make example/CMakeFiles/test_genomicsdb_importer.dir/build +make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'example/CMakeFiles/test_genomicsdb_importer.dir/build'. +make[4]: Nothing to be done for 'tools/CMakeFiles/vcf2genomicsdb_init.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 86%] Built target test_genomicsdb_demo -[ 87%] Built target vcf2genomicsdb -[ 87%] Built target create_genomicsdb_workspace -make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/depend -[ 87%] Built target vcf2genomicsdb_init -[ 88%] Built target gt_mpi_gather make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/DependInfo.cmake "--color=" -[ 89%] Built target consolidate_genomicsdb_array +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 87%] Built target test_genomicsdb_demo make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/vcfdiff.dir/build'. -[ 90%] Built target test_genomicsdb_bcf_generator make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 91%] Built target api_tests -[ 92%] Built target test_genomicsdb_importer -[ 93%] Built target vcf_histogram -Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". -Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". -Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". -Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". -Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target ctests -Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". -[ 94%] Built target vcfdiff +[ 87%] Built target test_genomicsdb_bcf_generator +[ 87%] Built target create_genomicsdb_workspace +[ 89%] Built target vcf2genomicsdb +[ 89%] Built target api_tests +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'example/CMakeFiles/test_genomicsdb_importer.dir/build'. +make[4]: Nothing to be done for 'tools/CMakeFiles/vcf_histogram.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f src/test/cpp/CMakeFiles/ctests.dir/build.make src/test/cpp/CMakeFiles/ctests.dir/build -Consolidate compiler generated dependencies of target genomicsdbjni make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'src/test/cpp/CMakeFiles/ctests.dir/build'. +[ 89%] Built target vcf2genomicsdb_init +[ 90%] Built target consolidate_genomicsdb_array +make[4]: Nothing to be done for 'tools/CMakeFiles/gt_mpi_gather.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'src/main/CMakeFiles/genomicsdbjni.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 99%] Built target ctests -[100%] Built target genomicsdbjni +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'src/test/cpp/CMakeFiles/ctests.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 91%] Built target vcfdiff +[ 92%] Built target test_genomicsdb_importer +[ 93%] Built target vcf_histogram +[ 98%] Built target ctests +[100%] Built target gt_mpi_gather +[ 99%] Built target genomicsdbjni make[3]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/CMakeFiles 0 make[2]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' @@ -9408,7 +9386,6 @@ Use -Xlint:-options to suppress this message. Use -proc:none to disable annotation processing. [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBVidMapProto.java:[93,30] non-transient instance field of a serializable class declared with a non-serializable type -[WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBTimer.java:[37,14] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/model/ImportConfig.java:[76,36] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBImportConfiguration.java:[177,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBImportConfiguration.java:[2228,30] non-transient instance field of a serializable class declared with a non-serializable type @@ -9417,6 +9394,7 @@ [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/Coordinates.java:[3035,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/Coordinates.java:[3987,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBCallsetsMapProto.java:[139,30] non-transient instance field of a serializable class declared with a non-serializable type +[WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBTimer.java:[37,14] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/exception/GenomicsDBException.java:[28,8] serializable class org.genomicsdb.exception.GenomicsDBException has no definition of serialVersionUID [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[91,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[91,13] org.json.simple.JSONObject in org.json.simple has been deprecated @@ -9501,7 +9479,7 @@ processing is enabled explicitly (-proc:only, -proc:full). Use -Xlint:-options to suppress this message. Use -proc:none to disable annotation processing. -[WARNING] No processor claimed any of these annotations: /org.testng.annotations.BeforeClass,/org.testng.annotations.Test,/org.testng.annotations.DataProvider,/org.testng.annotations.BeforeMethod,/org.testng.annotations.AfterMethod +[WARNING] No processor claimed any of these annotations: /org.testng.annotations.Test,/org.testng.annotations.BeforeClass,/org.testng.annotations.DataProvider,/org.testng.annotations.BeforeMethod,/org.testng.annotations.AfterMethod [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[171,9] org.json.simple.parser.JSONParser in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[171,33] org.json.simple.parser.JSONParser in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[175,13] org.json.simple.JSONObject in org.json.simple has been deprecated @@ -9537,15 +9515,15 @@ ERROR StatusLogger Reconfiguration failed: No configuration found for '639fee48' at 'null' in 'null' GenomicsDB: org.genomicsdb.importer.extensions.VidMapExtensions VCF header has 2 lines with the same field name test_field and header line type -- only the first line is considered by GenomicsDB GenomicsDB: org.genomicsdb.importer.extensions.VidMapExtensions VCF header has 2 lines with the same field name test_field and header line type -- only the first line is considered by GenomicsDB -GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),0.0026114629999999996,Cpu time(s),0.002628075 -GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),0.001170836,Cpu time(s),0.0011884279999999998 -GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),3.16758E-4,Cpu time(s),3.6151399999999995E-4 -GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),2.90179E-4,Cpu time(s),3.1454400000000004E-4 -GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),4.06413E-4,Cpu time(s),4.1896E-4 -GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),2.17559E-4,Cpu time(s),2.23065E-4 -GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),2.43138E-4,Cpu time(s),2.53422E-4 -GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),5.0968E-4,Cpu time(s),4.1806899999999997E-4 -[INFO] Tests run: 46, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 22.806 s - in TestSuite +GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),0.00612235,Cpu time(s),0.004145734 +GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),0.002359655,Cpu time(s),0.001355291 +GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),8.82866E-4,Cpu time(s),5.17929E-4 +GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),8.1025E-4,Cpu time(s),4.813609999999999E-4 +GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),0.001058925,Cpu time(s),6.2539E-4 +GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),2.21415E-4,Cpu time(s),2.27206E-4 +GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),2.89362E-4,Cpu time(s),2.56711E-4 +GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),5.02644E-4,Cpu time(s),4.20589E-4 +[INFO] Tests run: 46, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 12.795 s - in TestSuite [INFO] [INFO] Results: [INFO] @@ -9554,8 +9532,8 @@ [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ -[INFO] Total time: 58.661 s -[INFO] Finished at: 2025-08-31T02:51:04-12:00 +[INFO] Total time: 55.710 s +[INFO] Finished at: 2026-10-04T11:22:33+14:00 [INFO] ------------------------------------------------------------------------ make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' create-stamp debian/debhelper-build-stamp @@ -9584,15 +9562,15 @@ [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ -[INFO] Total time: 0.364 s -[INFO] Finished at: 2025-08-31T02:51:05-12:00 +[INFO] Total time: 0.888 s +[INFO] Finished at: 2026-10-04T11:22:38+14:00 [INFO] ------------------------------------------------------------------------ mh_resolve_dependencies --non-interactive --offline --build -plibgenomicsdb-java --base-directory=/build/reproducible-path/genomicsdb-1.5.5 --non-explore Analysing pom.xml... mh_unpatchpoms -plibgenomicsdb-java make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' dh_auto_install -O--buildsystem=cmake -Nlibgenomicsdb-java - cd obj-x86_64-linux-gnu && make -j12 install DESTDIR=/build/reproducible-path/genomicsdb-1.5.5/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" + cd obj-x86_64-linux-gnu && make -j16 install DESTDIR=/build/reproducible-path/genomicsdb-1.5.5/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/genomicsdb-1.5.5 -B/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall @@ -9604,33 +9582,33 @@ -- Install configuration: "None" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/genomicsdb/libgenomicsdb-hts.so -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kroundup.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/sam.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/cram.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts_log.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/tbx.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts_defs.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/synced_bcf_reader.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/vcf_sweep.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/bgzf.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/khash.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/thread_pool.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts_endian.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/vcf.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/vcfutils.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kseq.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/faidx.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/bgzf.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/knetfile.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/vcfutils.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kbitset.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/regidx.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/khash_str2int.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/klist.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kstring.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hfile.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/ksort.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/cram.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/tbx.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/vcf.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts_defs.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts_endian.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/khash.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kfunc.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/vcf_sweep.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts_os.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kseq.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts_log.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/thread_pool.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/regidx.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/klist.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hfile.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kbitset.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kroundup.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/sam.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/genomicsdb/libgenomicsdb-tiledb.a -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/genomicsdb/libgenomicsdb-tiledb.so -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/tiledb/tiledb.h @@ -9677,7 +9655,7 @@ /build/reproducible-path/genomicsdb-1.5.5/debian/libgenomicsdb-jni/usr/lib/jni/libgenomicsdbjni.so: new RUNPATH: /usr/lib/x86_64-linux-gnu/genomicsdb make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' jh_installjavadoc -O--buildsystem=cmake -Duplicate specification "author|A=s" for option "A" +Duplicate specification "A" for option "A" dh_installdocs -O--buildsystem=cmake dh_installchangelogs -O--buildsystem=cmake dh_installexamples -O--buildsystem=cmake @@ -9688,7 +9666,7 @@ dh_link -O--buildsystem=cmake jh_installlibs -O--buildsystem=cmake jh_classpath -O--buildsystem=cmake -Duplicate specification "V:s" for option "V" +Duplicate specification "version|V" for option "V" jh_manifest -O--buildsystem=cmake Duplicate specification "version|V" for option "V" jh_exec -O--buildsystem=cmake @@ -9713,13 +9691,13 @@ dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-tiledb.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-tiledb.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-tiledb.so' -dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-hts.so' -dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-hts.so' -dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-hts.so' dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib64/ld-linux-x86-64.so.2 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib64/ld-linux-x86-64.so.2.usr-is-merged +dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-hts.so' +dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-hts.so' +dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-hts.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-tiledb.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-tiledb.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-tiledb.so' @@ -9729,7 +9707,7 @@ dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-tiledb.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-tiledb.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-tiledb.so' -dpkg-shlibdeps: warning: debian/libgenomicsdb1/usr/lib/x86_64-linux-gnu/genomicsdb/libgenomicsdb-hts.so contains an unresolvable reference to symbol compressBound: it's probably a plugin +dpkg-shlibdeps: warning: debian/libgenomicsdb1/usr/lib/x86_64-linux-gnu/genomicsdb/libgenomicsdb-hts.so contains an unresolvable reference to symbol exp: it's probably a plugin dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) dh_installdeb -O--buildsystem=cmake dh_gencontrol -O--buildsystem=cmake @@ -9743,8 +9721,8 @@ dpkg-deb: building package 'genomicsdb-tools' in '../genomicsdb-tools_1.5.5-1_amd64.deb'. dpkg-deb: building package 'genomicsdb-tools-dbgsym' in '../genomicsdb-tools-dbgsym_1.5.5-1_amd64.deb'. dpkg-deb: building package 'libgenomicsdb1' in '../libgenomicsdb1_1.5.5-1_amd64.deb'. -dpkg-deb: building package 'libgenomicsdb-dev' in '../libgenomicsdb-dev_1.5.5-1_amd64.deb'. dpkg-deb: building package 'libgenomicsdb1-dbgsym' in '../libgenomicsdb1-dbgsym_1.5.5-1_amd64.deb'. +dpkg-deb: building package 'libgenomicsdb-dev' in '../libgenomicsdb-dev_1.5.5-1_amd64.deb'. dpkg-genbuildinfo --build=binary -O../genomicsdb_1.5.5-1_amd64.buildinfo dpkg-genchanges --build=binary -O../genomicsdb_1.5.5-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -9752,12 +9730,14 @@ 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/3281456/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/3281456/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/3538422 and its subdirectories -I: Current time: Sun Aug 31 02:52:15 -12 2025 -I: pbuilder-time-stamp: 1756651935 +I: removing directory /srv/workspace/pbuilder/3281456 and its subdirectories +I: Current time: Sun Oct 4 11:24:28 +14 2026 +I: pbuilder-time-stamp: 1791062668